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Platform GPL2025 Query DataSets for GPL2025
Status Public on May 05, 2005
Title [Rice] Affymetrix Rice Genome Array
Technology type in situ oligonucleotide
Distribution commercial
Organism Oryza sativa
Manufacturer Affymetrix
Manufacture protocol see manufacturer's web site
 
Description Affymetrix submissions are typically submitted to GEO using the GEOarchive method described at http://www.ncbi.nlm.nih.gov/projects/geo/info/geo_affy.html

This array contains probes to query 51,279 transcripts representing two rice cultivars, with approximately 48,564 japonica transcripts and 1,260 transcripts representing the indica cultivar.This array contains probes to query 51,279 transcripts representing two rice cultivars, with approximately 48,564 japonica transcripts and 1,260 transcripts representing the indica cultivar. This unique design was created within the Affymetrix GeneChip Consortia Program and provides scientists with a single array that can be used for the study of rice. High-quality sequence data were derived from GenBank mRNAs, TIGR gene predictions, and the International Rice Genome sequencing project. The arrays were designed using NCBI UniGene Build #52, (May 7, 2004) incorporating predicted genes from GenBank and the TIGR Os1 v2 data set. (ftp.tigr.org FASTA, 89.3 MB)

Annotations derived from Affymetrix CSV file dated 4/01/2005
 
Web link http://www.affymetrix.com/support/technical/byproduct.affx?product=rice
http://www.affymetrix.com/analysis/index.affx
Submission date May 05, 2005
Last update date Dec 27, 2017
Organization Affymetrix, Inc.
E-mail(s) [email protected], [email protected]
Phone 888-362-2447
URL http://www.affymetrix.com/index.affx
Street address
City Santa Clara
State/province CA
ZIP/Postal code 95051
Country USA
 
Samples (3606) GSM67052, GSM67053, GSM67054, GSM67055, GSM67056, GSM67057 
Series (233)
GSE3053 Rice salt expression
GSE4438 Expression data from rice under salinity stress
GSE4471 Expression data from rice varieties Azucena and Bala grown in 0 and 1ppm arsenate
Relations
Affiliated with GPL11322
Affiliated with GPL16106 (Alternative CDF [affyricechipalt.cdf])
Alternative to GPL18620 (Alternative custom CDF)

Data table header descriptions
ID Affymetrix Probe Set ID
GB_ACC GenBank Accession Number
SPOT_ID identifies controls
Species Scientific Name The genus and species of the organism represented by the probe set.
Annotation Date The date that the annotations for this probe array were last updated. It will generally be earlier than the date when the annotations were posted on the Affymetrix web site.
Sequence Type Indicates whether the sequence is an Exemplar, Consensus or Control sequence. An Exemplar is a single nucleotide sequence taken directly from a public database. This sequence could be an mRNA or EST. A Consensus sequence, is a nucleotide sequence assembled by Affymetrix, based on one or more sequence taken from a public database.
Sequence Source The database from which the sequence used to design this probe set was taken.
Representative Public ID The accession number of a representative sequence. Note that for consensus-based probe sets, the representative sequence is only one of several sequences (sequence sub-clusters) used to build the consensus sequence and it is not directly used to derive the probe sequences. The representative sequence is chosen during array design as a sequence that is best associated with the transcribed region being interrogated by the probe set. Refer to the "Sequence Source" field to determine the database used.
Target Description GenBank description associated with the representative public identifier. Blank for some probe sets.
Gene Title Title of Gene represented by the probe set.
Gene Symbol A gene symbol, when one is available (from UniGene).
ENTREZ_GENE_ID Entrez Gene Database UID
RefSeq Transcript ID References to multiple sequences in RefSeq. The field contains the ID and Description for each entry, and there can be multiple entries per ProbeSet.
Gene Ontology Biological Process Gene Ontology Consortium Biological Process derived from LocusLink. Each annotation consists of three parts: "Accession Number // Description // Evidence". The description corresponds directly to the GO ID. The evidence can be "direct", or "extended".
Gene Ontology Cellular Component Gene Ontology Consortium Cellular Component derived from LocusLink. Each annotation consists of three parts: "Accession Number // Description // Evidence". The description corresponds directly to the GO ID. The evidence can be "direct", or "extended".
Gene Ontology Molecular Function Gene Ontology Consortium Molecular Function derived from LocusLink. Each annotation consists of three parts: "Accession Number // Description // Evidence". The description corresponds directly to the GO ID. The evidence can be "direct", or "extended".

Data table
ID GB_ACC SPOT_ID Species Scientific Name Annotation Date Sequence Type Sequence Source Representative Public ID Target Description Gene Title Gene Symbol ENTREZ_GENE_ID RefSeq Transcript ID Gene Ontology Biological Process Gene Ontology Cellular Component Gene Ontology Molecular Function
AFFX-BioB-3_at --control Oryza sativa Mar 11, 2009 Consensus sequence Affymetrix Proprietary Database AFFX-BioB-3 E. coli /GEN=bioB /DB_XREF=gb:J04423.1 /NOTE=SIF corresponding to nucleotides 2755-3052 of gb:J04423.1 /DEF=E.coli 7,8-diamino-pelargonic acid (bioA), biotin synthetase (bioB), 7-keto-8-amino-pelargonic acid synthetase (bioF), bioC protein, and dethiobiotin synthetase (bioD), complete cds. 0008152 // metabolic process // inferred from electronic annotation /// 0009058 // biosynthetic process // inferred from electronic annotation /// 0009102 // biotin biosynthetic process // inferred from electronic annotation /// 0009236 // cobalamin biosynthetic process // inferred from electronic annotation 0005737 // cytoplasm // inferred from electronic annotation 0000166 // nucleotide binding // inferred from electronic annotation /// 0000287 // magnesium ion binding // inferred from electronic annotation /// 0003824 // catalytic activity // inferred from electronic annotation /// 0004015 // adenosylmethionine-8-amino-7-oxononanoate transaminase activity // inferred from electronic annotation /// 0004076 // biotin synthase activity // inferred from electronic annotation /// 0004141 // dethiobiotin synthase activity // inferred from electronic annotation /// 0005506 // iron ion binding // inferred from electronic annotation /// 0005524 // ATP binding // inferred from electronic annotation /// 0008168 // methyltransferase activity // inferred from electronic annotation /// 0008483 // transaminase activity // inferred from electronic annotation /// 0008710 // 8-amino-7-oxononanoate synthase activity // inferred from electronic annotation /// 0016740 // transferase activity // inferred from electronic annotation /// 0016769 // transferase activity, transferring nitrogenous groups // inferred from electronic annotation /// 0016874 // ligase activity // inferred from electronic annotation /// 0030170 // pyridoxal phosphate binding // inferred from electronic annotation /// 0042242 // cobyrinic acid a,c-diamide synthase activity // inferred from electronic annotation /// 0046872 // metal ion binding // inferred from electronic annotation /// 0051536 // iron-sulfur cluster binding // inferred from electronic annotation /// 0051537 // 2 iron, 2 sulfur cluster binding // inferred from electronic annotation /// 0051539 // 4 iron, 4 sulfur cluster binding // inferred from electronic annotation
AFFX-BioB-5_at --control Oryza sativa Mar 11, 2009 Consensus sequence Affymetrix Proprietary Database AFFX-BioB-5 E. coli /GEN=bioB /DB_XREF=gb:J04423.1 /NOTE=SIF corresponding to nucleotides 2032-2305 of gb:J04423.1 /DEF=E.coli 7,8-diamino-pelargonic acid (bioA), biotin synthetase (bioB), 7-keto-8-amino-pelargonic acid synthetase (bioF), bioC protein, and dethiobiotin synthetase (bioD), complete cds. 0008152 // metabolic process // inferred from electronic annotation /// 0009058 // biosynthetic process // inferred from electronic annotation /// 0009102 // biotin biosynthetic process // inferred from electronic annotation /// 0009236 // cobalamin biosynthetic process // inferred from electronic annotation 0005737 // cytoplasm // inferred from electronic annotation 0000166 // nucleotide binding // inferred from electronic annotation /// 0000287 // magnesium ion binding // inferred from electronic annotation /// 0003824 // catalytic activity // inferred from electronic annotation /// 0004015 // adenosylmethionine-8-amino-7-oxononanoate transaminase activity // inferred from electronic annotation /// 0004076 // biotin synthase activity // inferred from electronic annotation /// 0004141 // dethiobiotin synthase activity // inferred from electronic annotation /// 0005506 // iron ion binding // inferred from electronic annotation /// 0005524 // ATP binding // inferred from electronic annotation /// 0008168 // methyltransferase activity // inferred from electronic annotation /// 0008483 // transaminase activity // inferred from electronic annotation /// 0008710 // 8-amino-7-oxononanoate synthase activity // inferred from electronic annotation /// 0016740 // transferase activity // inferred from electronic annotation /// 0016769 // transferase activity, transferring nitrogenous groups // inferred from electronic annotation /// 0016874 // ligase activity // inferred from electronic annotation /// 0030170 // pyridoxal phosphate binding // inferred from electronic annotation /// 0042242 // cobyrinic acid a,c-diamide synthase activity // inferred from electronic annotation /// 0046872 // metal ion binding // inferred from electronic annotation /// 0051536 // iron-sulfur cluster binding // inferred from electronic annotation /// 0051537 // 2 iron, 2 sulfur cluster binding // inferred from electronic annotation /// 0051539 // 4 iron, 4 sulfur cluster binding // inferred from electronic annotation
AFFX-BioB-M_at --control Oryza sativa Mar 11, 2009 Consensus sequence Affymetrix Proprietary Database AFFX-BioB-M E. coli /GEN=bioB /DB_XREF=gb:J04423.1 /NOTE=SIF corresponding to nucleotides 2482-2739 of gb:J04423.1 /DEF=E.coli 7,8-diamino-pelargonic acid (bioA), biotin synthetase (bioB), 7-keto-8-amino-pelargonic acid synthetase (bioF), bioC protein, and dethiobiotin synthetase (bioD), complete cds. 0008152 // metabolic process // inferred from electronic annotation /// 0009058 // biosynthetic process // inferred from electronic annotation /// 0009102 // biotin biosynthetic process // inferred from electronic annotation /// 0009236 // cobalamin biosynthetic process // inferred from electronic annotation 0005737 // cytoplasm // inferred from electronic annotation 0000166 // nucleotide binding // inferred from electronic annotation /// 0000287 // magnesium ion binding // inferred from electronic annotation /// 0003824 // catalytic activity // inferred from electronic annotation /// 0004015 // adenosylmethionine-8-amino-7-oxononanoate transaminase activity // inferred from electronic annotation /// 0004076 // biotin synthase activity // inferred from electronic annotation /// 0004141 // dethiobiotin synthase activity // inferred from electronic annotation /// 0005506 // iron ion binding // inferred from electronic annotation /// 0005524 // ATP binding // inferred from electronic annotation /// 0008168 // methyltransferase activity // inferred from electronic annotation /// 0008483 // transaminase activity // inferred from electronic annotation /// 0008710 // 8-amino-7-oxononanoate synthase activity // inferred from electronic annotation /// 0016740 // transferase activity // inferred from electronic annotation /// 0016769 // transferase activity, transferring nitrogenous groups // inferred from electronic annotation /// 0016874 // ligase activity // inferred from electronic annotation /// 0030170 // pyridoxal phosphate binding // inferred from electronic annotation /// 0042242 // cobyrinic acid a,c-diamide synthase activity // inferred from electronic annotation /// 0046872 // metal ion binding // inferred from electronic annotation /// 0051536 // iron-sulfur cluster binding // inferred from electronic annotation /// 0051537 // 2 iron, 2 sulfur cluster binding // inferred from electronic annotation /// 0051539 // 4 iron, 4 sulfur cluster binding // inferred from electronic annotation
AFFX-BioC-3_at --control Oryza sativa Mar 11, 2009 Consensus sequence Affymetrix Proprietary Database AFFX-BioC-3 E. coli /GEN=bioC /DB_XREF=gb:J04423.1 /NOTE=SIF corresponding to nucleotides 4626-4878 of gb:J04423.1 /DEF=E.coli 7,8-diamino-pelargonic acid (bioA), biotin synthetase (bioB), 7-keto-8-amino-pelargonic acid synthetase (bioF), bioC protein, and dethiobiotin synthetase (bioD), complete cds. 0008152 // metabolic process // inferred from electronic annotation /// 0009058 // biosynthetic process // inferred from electronic annotation /// 0009102 // biotin biosynthetic process // inferred from electronic annotation /// 0009236 // cobalamin biosynthetic process // inferred from electronic annotation 0005737 // cytoplasm // inferred from electronic annotation 0000166 // nucleotide binding // inferred from electronic annotation /// 0000287 // magnesium ion binding // inferred from electronic annotation /// 0003824 // catalytic activity // inferred from electronic annotation /// 0004015 // adenosylmethionine-8-amino-7-oxononanoate transaminase activity // inferred from electronic annotation /// 0004076 // biotin synthase activity // inferred from electronic annotation /// 0004141 // dethiobiotin synthase activity // inferred from electronic annotation /// 0005506 // iron ion binding // inferred from electronic annotation /// 0005524 // ATP binding // inferred from electronic annotation /// 0008168 // methyltransferase activity // inferred from electronic annotation /// 0008483 // transaminase activity // inferred from electronic annotation /// 0008710 // 8-amino-7-oxononanoate synthase activity // inferred from electronic annotation /// 0016740 // transferase activity // inferred from electronic annotation /// 0016769 // transferase activity, transferring nitrogenous groups // inferred from electronic annotation /// 0016874 // ligase activity // inferred from electronic annotation /// 0030170 // pyridoxal phosphate binding // inferred from electronic annotation /// 0042242 // cobyrinic acid a,c-diamide synthase activity // inferred from electronic annotation /// 0046872 // metal ion binding // inferred from electronic annotation /// 0051536 // iron-sulfur cluster binding // inferred from electronic annotation /// 0051537 // 2 iron, 2 sulfur cluster binding // inferred from electronic annotation /// 0051539 // 4 iron, 4 sulfur cluster binding // inferred from electronic annotation
AFFX-BioC-5_at --control Oryza sativa Mar 11, 2009 Consensus sequence Affymetrix Proprietary Database AFFX-BioC-5 E. coli /GEN=bioC /DB_XREF=gb:J04423.1 /NOTE=SIF corresponding to nucleotides 4218-4566 of gb:J04423.1 /DEF=E.coli 7,8-diamino-pelargonic acid (bioA), biotin synthetase (bioB), 7-keto-8-amino-pelargonic acid synthetase (bioF), bioC protein, and dethiobiotin synthetase (bioD), complete cds. 0008152 // metabolic process // inferred from electronic annotation /// 0009058 // biosynthetic process // inferred from electronic annotation /// 0009102 // biotin biosynthetic process // inferred from electronic annotation /// 0009236 // cobalamin biosynthetic process // inferred from electronic annotation 0005737 // cytoplasm // inferred from electronic annotation 0000166 // nucleotide binding // inferred from electronic annotation /// 0000287 // magnesium ion binding // inferred from electronic annotation /// 0003824 // catalytic activity // inferred from electronic annotation /// 0004015 // adenosylmethionine-8-amino-7-oxononanoate transaminase activity // inferred from electronic annotation /// 0004076 // biotin synthase activity // inferred from electronic annotation /// 0004141 // dethiobiotin synthase activity // inferred from electronic annotation /// 0005506 // iron ion binding // inferred from electronic annotation /// 0005524 // ATP binding // inferred from electronic annotation /// 0008168 // methyltransferase activity // inferred from electronic annotation /// 0008483 // transaminase activity // inferred from electronic annotation /// 0008710 // 8-amino-7-oxononanoate synthase activity // inferred from electronic annotation /// 0016740 // transferase activity // inferred from electronic annotation /// 0016769 // transferase activity, transferring nitrogenous groups // inferred from electronic annotation /// 0016874 // ligase activity // inferred from electronic annotation /// 0030170 // pyridoxal phosphate binding // inferred from electronic annotation /// 0042242 // cobyrinic acid a,c-diamide synthase activity // inferred from electronic annotation /// 0046872 // metal ion binding // inferred from electronic annotation /// 0051536 // iron-sulfur cluster binding // inferred from electronic annotation /// 0051537 // 2 iron, 2 sulfur cluster binding // inferred from electronic annotation /// 0051539 // 4 iron, 4 sulfur cluster binding // inferred from electronic annotation
AFFX-BioDn-3_at --control Oryza sativa Mar 11, 2009 Consensus sequence Affymetrix Proprietary Database AFFX-BioDn-3 E. coli /GEN=bioD /DB_XREF=gb:J04423.1 /NOTE=SIF corresponding to nucleotides 5286-5570 of gb:J04423.1, not 100% identical /DEF=E.coli 7,8-diamino-pelargonic acid (bioA), biotin synthetase (bioB), 7-keto-8-amino-pelargonic acid synthetase (bioF), bioC protein, and dethiobiotin synthetase (bioD), complete cds. 0008152 // metabolic process // inferred from electronic annotation /// 0009058 // biosynthetic process // inferred from electronic annotation /// 0009102 // biotin biosynthetic process // inferred from electronic annotation /// 0009236 // cobalamin biosynthetic process // inferred from electronic annotation 0005737 // cytoplasm // inferred from electronic annotation 0000166 // nucleotide binding // inferred from electronic annotation /// 0000287 // magnesium ion binding // inferred from electronic annotation /// 0003824 // catalytic activity // inferred from electronic annotation /// 0004015 // adenosylmethionine-8-amino-7-oxononanoate transaminase activity // inferred from electronic annotation /// 0004076 // biotin synthase activity // inferred from electronic annotation /// 0004141 // dethiobiotin synthase activity // inferred from electronic annotation /// 0005506 // iron ion binding // inferred from electronic annotation /// 0005524 // ATP binding // inferred from electronic annotation /// 0008168 // methyltransferase activity // inferred from electronic annotation /// 0008483 // transaminase activity // inferred from electronic annotation /// 0008710 // 8-amino-7-oxononanoate synthase activity // inferred from electronic annotation /// 0016740 // transferase activity // inferred from electronic annotation /// 0016769 // transferase activity, transferring nitrogenous groups // inferred from electronic annotation /// 0016874 // ligase activity // inferred from electronic annotation /// 0030170 // pyridoxal phosphate binding // inferred from electronic annotation /// 0042242 // cobyrinic acid a,c-diamide synthase activity // inferred from electronic annotation /// 0046872 // metal ion binding // inferred from electronic annotation /// 0051536 // iron-sulfur cluster binding // inferred from electronic annotation /// 0051537 // 2 iron, 2 sulfur cluster binding // inferred from electronic annotation /// 0051539 // 4 iron, 4 sulfur cluster binding // inferred from electronic annotation
AFFX-BioDn-5_at --control Oryza sativa Mar 11, 2009 Consensus sequence Affymetrix Proprietary Database AFFX-BioDn-5 E. coli /GEN=bioD /DB_XREF=gb:J04423.1 /NOTE=SIF corresponding to nucleotides 4980-5256 of gb:J04423.1, not 100% identical /DEF=E.coli 7,8-diamino-pelargonic acid (bioA), biotin synthetase (bioB), 7-keto-8-amino-pelargonic acid synthetase (bioF), bioC protein, and dethiobiotin synthetase (bioD), complete cds. 0008152 // metabolic process // inferred from electronic annotation /// 0009058 // biosynthetic process // inferred from electronic annotation /// 0009102 // biotin biosynthetic process // inferred from electronic annotation /// 0009236 // cobalamin biosynthetic process // inferred from electronic annotation 0005737 // cytoplasm // inferred from electronic annotation 0000166 // nucleotide binding // inferred from electronic annotation /// 0000287 // magnesium ion binding // inferred from electronic annotation /// 0003824 // catalytic activity // inferred from electronic annotation /// 0004015 // adenosylmethionine-8-amino-7-oxononanoate transaminase activity // inferred from electronic annotation /// 0004076 // biotin synthase activity // inferred from electronic annotation /// 0004141 // dethiobiotin synthase activity // inferred from electronic annotation /// 0005506 // iron ion binding // inferred from electronic annotation /// 0005524 // ATP binding // inferred from electronic annotation /// 0008168 // methyltransferase activity // inferred from electronic annotation /// 0008483 // transaminase activity // inferred from electronic annotation /// 0008710 // 8-amino-7-oxononanoate synthase activity // inferred from electronic annotation /// 0016740 // transferase activity // inferred from electronic annotation /// 0016769 // transferase activity, transferring nitrogenous groups // inferred from electronic annotation /// 0016874 // ligase activity // inferred from electronic annotation /// 0030170 // pyridoxal phosphate binding // inferred from electronic annotation /// 0042242 // cobyrinic acid a,c-diamide synthase activity // inferred from electronic annotation /// 0046872 // metal ion binding // inferred from electronic annotation /// 0051536 // iron-sulfur cluster binding // inferred from electronic annotation /// 0051537 // 2 iron, 2 sulfur cluster binding // inferred from electronic annotation /// 0051539 // 4 iron, 4 sulfur cluster binding // inferred from electronic annotation
AFFX-CreX-3_at --control Oryza sativa Mar 11, 2009 Consensus sequence Affymetrix Proprietary Database AFFX-CreX-3 Bacteriophage P1 /GEN=cre /DB_XREF=gb:X03453.1 /NOTE=SIF corresponding to nucleotides 1089-1495 of gb:X03453.1 /DEF=Bacteriophage P1 cre gene for recombinase protein. 0006310 // DNA recombination // inferred from electronic annotation /// 0015074 // DNA integration // inferred from electronic annotation /// 0032196 // transposition // inferred from electronic annotation 0003677 // DNA binding // inferred from electronic annotation
AFFX-CreX-5_at --control Oryza sativa Mar 11, 2009 Consensus sequence Affymetrix Proprietary Database AFFX-CreX-5 Bacteriophage P1 /GEN=cre /DB_XREF=gb:X03453.1 /NOTE=SIF corresponding to nucleotides 513-1047 of gb:X03453.1 /DEF=Bacteriophage P1 cre gene for recombinase protein. 0006310 // DNA recombination // inferred from electronic annotation /// 0015074 // DNA integration // inferred from electronic annotation /// 0032196 // transposition // inferred from electronic annotation 0003677 // DNA binding // inferred from electronic annotation
AFFX-DapX-3_at --control Oryza sativa Mar 11, 2009 Consensus sequence Affymetrix Proprietary Database AFFX-DapX-3 B. subtilis /GEN=jojG /DB_XREF=gb:L38424.1 /NOTE=SIF corresponding to nucleotides 2684-3130 of gb:L38424.1 /DEF=Bacillus subtilis dihydropicolinate reductase (jojE) gene, complete cds; poly(A) polymerase (jojI) gene, complete cds; biotin acetyl-CoA-carboxylase ligase (birA) gene, complete cds; jojC, jojD, jojF, jojG, jojH genes, complete cds's. 0001680 // tRNA 3'-terminal CCA addition // inferred from electronic annotation /// 0006350 // transcription // inferred from electronic annotation /// 0006355 // regulation of transcription, DNA-dependent // inferred from electronic annotation /// 0006396 // RNA processing // inferred from electronic annotation /// 0006464 // protein modification process // inferred from electronic annotation /// 0008033 // tRNA processing // inferred from electronic annotation /// 0008152 // metabolic process // inferred from electronic annotation /// 0008652 // amino acid biosynthetic process // inferred from electronic annotation /// 0009058 // biosynthetic process // inferred from electronic annotation /// 0009085 // lysine biosynthetic process // inferred from electronic annotation /// 0009089 // lysine biosynthetic process via diaminopimelate // inferred from electronic annotation /// 0019242 // methylglyoxal biosynthetic process // inferred from electronic annotation /// 0019877 // diaminopimelate biosynthetic process // inferred from electronic annotation /// 0042245 // RNA repair // inferred from electronic annotation /// 0055114 // oxidation reduction // inferred from electronic annotation 0005737 // cytoplasm // inferred from electronic annotation /// 0005886 // plasma membrane // inferred from electronic annotation /// 0016020 // membrane // inferred from electronic annotation /// 0016021 // integral to membrane // inferred from electronic annotation 0000049 // tRNA binding // inferred from electronic annotation /// 0000166 // nucleotide binding // inferred from electronic annotation /// 0000287 // magnesium ion binding // inferred from electronic annotation /// 0003677 // DNA binding // inferred from electronic annotation /// 0003723 // RNA binding // inferred from electronic annotation /// 0003824 // catalytic activity // inferred from electronic annotation /// 0004077 // biotin-[acetyl-CoA-carboxylase] ligase activity // inferred from electronic annotation /// 0004810 // tRNA adenylyltransferase activity // inferred from electronic annotation /// 0005488 // binding // inferred from electronic annotation /// 0005524 // ATP binding // inferred from electronic annotation /// 0008839 // dihydrodipicolinate reductase activity // inferred from electronic annotation /// 0008929 // methylglyoxal synthase activity // inferred from electronic annotation /// 0016437 // tRNA cytidylyltransferase activity // inferred from electronic annotation /// 0016491 // oxidoreductase activity // inferred from electronic annotation /// 0016564 // transcription repressor activity // inferred from electronic annotation /// 0016740 // transferase activity // inferred from electronic annotation /// 0016757 // transferase activity, transferring glycosyl groups // inferred from electronic annotation /// 0016779 // nucleotidyltransferase activity // inferred from electronic annotation /// 0016829 // lyase activity // inferred from electronic annotation /// 0016874 // ligase activity // inferred from electronic annotation /// 0046872 // metal ion binding // inferred from electronic annotation
AFFX-DapX-5_at --control Oryza sativa Mar 11, 2009 Consensus sequence Affymetrix Proprietary Database AFFX-DapX-5 B. subtilis /GEN=dapB /DB_XREF=gb:L38424.1 /NOTE=SIF corresponding to nucleotides 1428-1926 of gb:L38424.1 /DEF=Bacillus subtilis dihydropicolinate reductase (jojE) gene, complete cds; poly(A) polymerase (jojI) gene, complete cds; biotin acetyl-CoA-carboxylase ligase (birA) gene, complete cds; jojC, jojD, jojF, jojG, jojH genes, complete cds's. 0001680 // tRNA 3'-terminal CCA addition // inferred from electronic annotation /// 0006350 // transcription // inferred from electronic annotation /// 0006355 // regulation of transcription, DNA-dependent // inferred from electronic annotation /// 0006396 // RNA processing // inferred from electronic annotation /// 0006464 // protein modification process // inferred from electronic annotation /// 0008033 // tRNA processing // inferred from electronic annotation /// 0008152 // metabolic process // inferred from electronic annotation /// 0008652 // amino acid biosynthetic process // inferred from electronic annotation /// 0009058 // biosynthetic process // inferred from electronic annotation /// 0009085 // lysine biosynthetic process // inferred from electronic annotation /// 0009089 // lysine biosynthetic process via diaminopimelate // inferred from electronic annotation /// 0019242 // methylglyoxal biosynthetic process // inferred from electronic annotation /// 0019877 // diaminopimelate biosynthetic process // inferred from electronic annotation /// 0042245 // RNA repair // inferred from electronic annotation /// 0055114 // oxidation reduction // inferred from electronic annotation 0005737 // cytoplasm // inferred from electronic annotation /// 0005886 // plasma membrane // inferred from electronic annotation /// 0016020 // membrane // inferred from electronic annotation /// 0016021 // integral to membrane // inferred from electronic annotation 0000049 // tRNA binding // inferred from electronic annotation /// 0000166 // nucleotide binding // inferred from electronic annotation /// 0000287 // magnesium ion binding // inferred from electronic annotation /// 0003677 // DNA binding // inferred from electronic annotation /// 0003723 // RNA binding // inferred from electronic annotation /// 0003824 // catalytic activity // inferred from electronic annotation /// 0004077 // biotin-[acetyl-CoA-carboxylase] ligase activity // inferred from electronic annotation /// 0004810 // tRNA adenylyltransferase activity // inferred from electronic annotation /// 0005488 // binding // inferred from electronic annotation /// 0005524 // ATP binding // inferred from electronic annotation /// 0008839 // dihydrodipicolinate reductase activity // inferred from electronic annotation /// 0008929 // methylglyoxal synthase activity // inferred from electronic annotation /// 0016437 // tRNA cytidylyltransferase activity // inferred from electronic annotation /// 0016491 // oxidoreductase activity // inferred from electronic annotation /// 0016564 // transcription repressor activity // inferred from electronic annotation /// 0016740 // transferase activity // inferred from electronic annotation /// 0016757 // transferase activity, transferring glycosyl groups // inferred from electronic annotation /// 0016779 // nucleotidyltransferase activity // inferred from electronic annotation /// 0016829 // lyase activity // inferred from electronic annotation /// 0016874 // ligase activity // inferred from electronic annotation /// 0046872 // metal ion binding // inferred from electronic annotation
AFFX-DapX-M_at --control Oryza sativa Mar 11, 2009 Consensus sequence Affymetrix Proprietary Database AFFX-DapX-M B. subtilis /GEN=dapB, jojF /DB_XREF=gb:L38424.1 /NOTE=SIF corresponding to nucleotides 2020-2580 of gb:L38424.1, not 100% identical /DEF=Bacillus subtilis dihydropicolinate reductase (jojE) gene, complete cds; poly(A) polymerase (jojI) gene, complete cds; biotin acetyl-CoA-carboxylase ligase (birA) gene, complete cds; jojC, jojD, jojF, jojG, jojH genes, complete cds's. 0001680 // tRNA 3'-terminal CCA addition // inferred from electronic annotation /// 0006350 // transcription // inferred from electronic annotation /// 0006355 // regulation of transcription, DNA-dependent // inferred from electronic annotation /// 0006396 // RNA processing // inferred from electronic annotation /// 0006464 // protein modification process // inferred from electronic annotation /// 0008033 // tRNA processing // inferred from electronic annotation /// 0008152 // metabolic process // inferred from electronic annotation /// 0008652 // amino acid biosynthetic process // inferred from electronic annotation /// 0009058 // biosynthetic process // inferred from electronic annotation /// 0009085 // lysine biosynthetic process // inferred from electronic annotation /// 0009089 // lysine biosynthetic process via diaminopimelate // inferred from electronic annotation /// 0019242 // methylglyoxal biosynthetic process // inferred from electronic annotation /// 0019877 // diaminopimelate biosynthetic process // inferred from electronic annotation /// 0042245 // RNA repair // inferred from electronic annotation /// 0055114 // oxidation reduction // inferred from electronic annotation 0005737 // cytoplasm // inferred from electronic annotation /// 0005886 // plasma membrane // inferred from electronic annotation /// 0016020 // membrane // inferred from electronic annotation /// 0016021 // integral to membrane // inferred from electronic annotation 0000049 // tRNA binding // inferred from electronic annotation /// 0000166 // nucleotide binding // inferred from electronic annotation /// 0000287 // magnesium ion binding // inferred from electronic annotation /// 0003677 // DNA binding // inferred from electronic annotation /// 0003723 // RNA binding // inferred from electronic annotation /// 0003824 // catalytic activity // inferred from electronic annotation /// 0004077 // biotin-[acetyl-CoA-carboxylase] ligase activity // inferred from electronic annotation /// 0004810 // tRNA adenylyltransferase activity // inferred from electronic annotation /// 0005488 // binding // inferred from electronic annotation /// 0005524 // ATP binding // inferred from electronic annotation /// 0008839 // dihydrodipicolinate reductase activity // inferred from electronic annotation /// 0008929 // methylglyoxal synthase activity // inferred from electronic annotation /// 0016437 // tRNA cytidylyltransferase activity // inferred from electronic annotation /// 0016491 // oxidoreductase activity // inferred from electronic annotation /// 0016564 // transcription repressor activity // inferred from electronic annotation /// 0016740 // transferase activity // inferred from electronic annotation /// 0016757 // transferase activity, transferring glycosyl groups // inferred from electronic annotation /// 0016779 // nucleotidyltransferase activity // inferred from electronic annotation /// 0016829 // lyase activity // inferred from electronic annotation /// 0016874 // ligase activity // inferred from electronic annotation /// 0046872 // metal ion binding // inferred from electronic annotation
AFFX-LysX-3_at --control Oryza sativa Mar 11, 2009 Consensus sequence Affymetrix Proprietary Database AFFX-LysX-3 B. subtilis /GEN=lys /DB_XREF=gb:X17013.1 /NOTE=SIF corresponding to nucleotides 1061-1343 of gb:X17013.1, not 100% identical /DEF=B subtilis lys gene for diaminopimelate decarboxylase (EC 4.1.1.20). 0008652 // amino acid biosynthetic process // inferred from electronic annotation /// 0009085 // lysine biosynthetic process // inferred from electronic annotation /// 0009089 // lysine biosynthetic process via diaminopimelate // inferred from electronic annotation 0003824 // catalytic activity // inferred from electronic annotation /// 0008836 // diaminopimelate decarboxylase activity // inferred from electronic annotation /// 0016829 // lyase activity // inferred from electronic annotation /// 0016831 // carboxy-lyase activity // inferred from electronic annotation
AFFX-LysX-5_at --control Oryza sativa Mar 11, 2009 Consensus sequence Affymetrix Proprietary Database AFFX-LysX-5 B. subtilis /GEN=lys /DB_XREF=gb:X17013.1 /NOTE=SIF corresponding to nucleotides 387-658 of gb:X17013.1, not 100% identical /DEF=B subtilis lys gene for diaminopimelate decarboxylase (EC 4.1.1.20). 0008652 // amino acid biosynthetic process // inferred from electronic annotation /// 0009085 // lysine biosynthetic process // inferred from electronic annotation /// 0009089 // lysine biosynthetic process via diaminopimelate // inferred from electronic annotation 0003824 // catalytic activity // inferred from electronic annotation /// 0008836 // diaminopimelate decarboxylase activity // inferred from electronic annotation /// 0016829 // lyase activity // inferred from electronic annotation /// 0016831 // carboxy-lyase activity // inferred from electronic annotation
AFFX-LysX-M_at --control Oryza sativa Mar 11, 2009 Consensus sequence Affymetrix Proprietary Database AFFX-LysX-M B. subtilis /GEN=lys /DB_XREF=gb:X17013.1 /NOTE=SIF corresponding to nucleotides 720-990 of gb:X17013.1, not 100% identical /DEF=B subtilis lys gene for diaminopimelate decarboxylase (EC 4.1.1.20). 0008652 // amino acid biosynthetic process // inferred from electronic annotation /// 0009085 // lysine biosynthetic process // inferred from electronic annotation /// 0009089 // lysine biosynthetic process via diaminopimelate // inferred from electronic annotation 0003824 // catalytic activity // inferred from electronic annotation /// 0008836 // diaminopimelate decarboxylase activity // inferred from electronic annotation /// 0016829 // lyase activity // inferred from electronic annotation /// 0016831 // carboxy-lyase activity // inferred from electronic annotation
AFFX-Mgr-actin-3_at --control Magnaporthe grisea Mar 11, 2009 Consensus sequence Affymetrix Proprietary Database AFFX-Mgr-actin-3 M. grisea /NOTE=CONTROL MG03982.4 /GEN=MG03982.4 /DB_XREF=gi:38103539 gb:EAA50223.1 /DEF=hypothetical protein similar to ACTG_CEPAC Actin, gamma gi|6002486|gb|AAF00008.1|AF056976_1 gamma-actin (Acremonium chrysogenum) gi|12718452|emb|CAC28718.1| Actin (Neurospora crassa) (15328 - 13567)
AFFX-Mgr-actin-5_at --control Magnaporthe grisea Mar 11, 2009 Consensus sequence Affymetrix Proprietary Database AFFX-Mgr-actin-5 M. grisea /NOTE=CONTROL MG03982.4 /GEN=MG03982.4 /DB_XREF=gi:38103539 gb:EAA50223.1 /DEF=hypothetical protein similar to ACTG_CEPAC Actin, gamma gi|6002486|gb|AAF00008.1|AF056976_1 gamma-actin (Acremonium chrysogenum) gi|12718452|emb|CAC28718.1| Actin (Neurospora crassa) (15328 - 13567)
AFFX-Mgr-actin-M_at --control Magnaporthe grisea Mar 11, 2009 Consensus sequence Affymetrix Proprietary Database AFFX-Mgr-actin-M M. grisea /NOTE=CONTROL MG03982.4 /GEN=MG03982.4 /DB_XREF=gi:38103539 gb:EAA50223.1 /DEF=hypothetical protein similar to ACTG_CEPAC Actin, gamma gi|6002486|gb|AAF00008.1|AF056976_1 gamma-actin (Acremonium chrysogenum) gi|12718452|emb|CAC28718.1| Actin (Neurospora crassa) (15328 - 13567)
AFFX-Mgr-ef1a-3_at --control Magnaporthe grisea Mar 11, 2009 Consensus sequence Affymetrix Proprietary Database AFFX-Mgr-ef1a-3 M. grisea /NOTE=CONTROL MG03641.4 /GEN=MG03641.4 /DB_XREF=gi:38105647 gb:EAA52046.1 /DEF=hypothetical protein similar to EF1A_PODAN ELONGATION FACTOR 1-ALPHA (EF-1-ALPHA) gi|1072496|pir||S43861 translation elongation factor eEF-1 alpha chain
AFFX-Mgr-ef1a-3_x_at --control Magnaporthe grisea Mar 11, 2009 Consensus sequence Affymetrix Proprietary Database AFFX-Mgr-ef1a-3 M. grisea /NOTE=CONTROL MG03641.4 /GEN=MG03641.4 /DB_XREF=gi:38105647 gb:EAA52046.1 /DEF=hypothetical protein similar to EF1A_PODAN ELONGATION FACTOR 1-ALPHA (EF-1-ALPHA) gi|1072496|pir||S43861 translation elongation factor eEF-1 alpha chain

Total number of rows: 57381

Table truncated, full table size 25027 Kbytes.






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