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Platform GPL17983 Query DataSets for GPL17983
Status Public on Aug 31, 2014
Title EcoArray Fathead Minnow 8 x 15K Microarray v1.0
Technology type in situ oligonucleotide
Distribution custom-commercial
Organism Pimephales promelas
Manufacturer EcoArray, Inc. / Agilent Technologies
Manufacture protocol EcoArray selected Agilent Technologies as the manufacturer of our microarrays for environmental toxicology. Agilent Technologies is a leading supplier of genomics and proteomics products. Using their SurePrint inkjet deposition of in situ synthesized 60-mer oligonucleotides, all microarrays are manufactured on superior quality 1” x 3” (24.2 mm x 76.2 mm) treated glass slides for overall excellent performance. See their website for details: http://www.agilent.com.
Catalog number Contact EcoArray for purchase
Support glass
Coating unknown
 
Description This microarray contains 60-mer probes for 15,208 fathead minnow sequences. Because there are eight arrays per slide, this is the most economical array. This microarray is 100% ANNOTATED. Genes included on this array matched the Nonredundant database with an evalue <E-05, or the Nucleotide database with evalue <E-06. All duplicate accession numbers were removed. The genes are part of a wide variety of biological pathways and processes including: reproduction, cell communication, metabolism, homeostasis, and others. This array is perfect for those researchers who do not want to worry about “no hits.”
 
Web link http://www.ecoarray.com
Contributor(s) Carter BJ, Larkin PM
Submission date Nov 24, 2013
Last update date Aug 31, 2014
Contact name Jennifer Arstikaitis
Organization name INRS-Institut Armand Frappier Universite du Quebec
Department Toxicology/Cellular and Molecular Biology
Street address 531, boulevard des Prairies
City Laval
State/province Quebec
ZIP/Postal code H7V 1B7
Country Canada
 
Samples (16) GSM1274209, GSM1274210, GSM1274211, GSM1274212, GSM1274213, GSM1274214 
Series (1)
GSE52693 Exposure of Feathead Minnows to Municipal Wastewater Effluent Inhibits the Canonical Wnt Signaling Pathway in the Liver

Data table header descriptions
ID
ProbeName EcoArray probe name or Agilent description
SEQUENCE Nucleotide sequence of the 60-mer probe (if applicable)
TargetID Unique identifier for the FASTA file in EcoArray's database
GI
GB_ACC
SPOT_ID
NR Hit Acc Accession number for the top hit in the Nonredundant database (NCBI)
NR E-Value E-value for the top hit in the Nonredundant database (NCBI)
NR Hit Def Gene definition for the top hit in the Nonredundant database (NCBI)
NT Hit Acc Accession number for the top hit in the Nucleotide database (NCBI)
NT E-Value E-value for the top hit in the Nucleotide database (NCBI)
NT Hit Def Gene definition for the top hit in the Nucleotide database (NCBI)
Gene Def Gene definition = the best name for the assembled contig
GO Biol Biological process gene ontology
GO Cell Cellular component gene ontology
GO Molec Molecular function gene ontology
SPOT_ID
ORDER

Data table
ID ProbeName SEQUENCE TargetID GI GB_ACC SPOT_ID NR Hit Acc NR E-Value NR Hit Def NT Hit Acc NT E-Value NT Hit Def Gene Def GO Biol GO Cell GO Molec SPOT_ID ORDER
EA_Pp_11145a EA_Pp_11145a CTTATATCAACATTGACAAGACCACCATTGAAGAAGCAATACCGATTGCCTCCGGACCCA FHM_JGI.62.C20_1 FHM_JGI.62.C20_1 AAD23878 0 vitellogenin precursor [Pimephales promelas] AF130354 0 Pimephales promelas vitellogenin precursor (Vtg) mRNA, complete cds vitellogenin 1 / GO:0006869; lipid transport No info GO:0005319; lipid transporter activity 6169
EA_Pp_50001a EA_Pp_50001a ATGACATTAAAGGTGTGCATGAGATTATTTAATGACCAGCCAGGAATTCCACCATGTCAT FHM_JGI_only_filt.46.C5___1rc_nrnt FHM_JGI_only_filt.46.C5___1rc_nrnt XP_707317 0 PREDICTED: similar to Chromodomain helicase DNA binding protein 4 isoform 2 [Danio rerio] XM_232354 0 Rattus norvegicus similar to chromodomain helicase DNA binding protein 4; Mi-2b (LOC312712), mRNA Chromodomain Helicase DNA Binding Protein 5 / GO:0006333; chromatin assembly or disassembly GO:0006350; transcription GO:0007231; osmosensory signaling pathway GO:0016568; chromatin modification GO:0006355; regulation of transcription, DNA-dependent GO:0005622; intracellular GO:0000785; chromatin GO:0005634; nucleus GO:0004386; helicase activity GO:0005524; ATP binding GO:0000166; nucleotide binding GO:0005515; protein binding GO:0003700; transcription factor activity GO:0003676; nucleic acid binding GO:0003677; DNA binding GO:0008134; transcription factor binding GO:0046872; metal ion binding GO:0008270; zinc ion binding GO:0016787; hydrolase activity GO:0003682; chromatin binding GO:0008026; ATP-dependent helicase activity 1744
EA_Pp_50002a EA_Pp_50002a TGATTTGCACCGCATTTAAAAACACAATGAAATCTTTCTGTTTTTGTTACCGCCAGTTAC FHM_JGI_only_filt.3362.C1___1_nr1nt0 FHM_JGI_only_filt.3362.C1___1_nr1nt0 NP_001004580 0 hypothetical protein LOC447841 [Danio rerio] >gi|51859395|gb|AAH81645.1| Zgc:92308 [Danio rerio] AC018801 0.271336 Homo sapiens BAC clone RP11-279O19 from 8, complete sequence Chromosome 1 Open Reading Frame 85 / GO:0000004; biological process unknown GO:0008372; cellular component unknown GO:0005554; molecular function unknown 9723
EA_Pp_50004a EA_Pp_50004a AACAGATTCGGGCAAGAAAGTCACAAAATGCAGTAACTGCAAGTACGGCGCAGAATGTGA FHM_JGI_only_filt.9678.C1___1_nrnt FHM_JGI_only_filt.9678.C1___1_nrnt AAH98543 0 Tmeff1 protein [Danio rerio] >gi|70778891|ref|NP_001020472.1| Tmeff1 protein [Danio rerio] BC076151 0 Danio rerio cDNA clone IMAGE:7073412, partial cds Zgc:110069 / No info No info No info 10
EA_Pp_50006a EA_Pp_50006a GCTCAGTCACATCTGTTCTTATTATAATGTTGCTTAGTTTGGCTGAATAAACGTTTGTGT FHM_JGI_only_filt.883.C1___1_nrnt FHM_JGI_only_filt.883.C1___1_nrnt XP_684311 0 PREDICTED: similar to splicing factor 3b, subunit 1 isoform 1 isoform 1 [Danio rerio] AY648823 0 Danio rerio splicing factor 3b subunit 1, 155kDa mRNA, partial cds Splicing Factor 3b, Subunit 1, 155kDa / GO:0000398; nuclear mRNA splicing, via spliceosome GO:0005681; spliceosome complex GO:0005488; binding GO:0031202; RNA splicing factor activity, transesterification mechanism 13549
EA_Pp_50007a EA_Pp_50007a GAGGATATGTGAAAGGACTCGCTGTTTCTCTGAGTGTTCTTTTGTGTCATATGGAGATGA FHM_JGI_only_filt.1263.C1___1_nrnt FHM_JGI_only_filt.1263.C1___1_nrnt AAH55581 0 Lectin, galactoside-binding, soluble, 1 (galectin 1)-like 3 [Danio rerio] >gi|41055788|ref|NP_956808.1| lectin, galactoside-binding, soluble, 1 (galectin 1)-like 3 [Danio rerio] BC055581 0 Danio rerio zgc:66283, mRNA (cDNA clone MGC:66283 IMAGE:5412208), complete cds Lectin, Galactoside-binding, Soluble, 1-like 3 / GO:0000004; biological process unknown GO:0008372; cellular component unknown GO:0005529; sugar binding GO:0016936; galactoside binding 10062
EA_Pp_50008a EA_Pp_50008a TCAATTGGTTCCGATTGTAGAATTACACGGTCAATAAAACACTCTCAGGTACACTGGAGT gi_72745809_gb_DT156727.1_DT156727___1_nr0nt1 72745809 DT156727.1 AAH76883 9.49042 MGC88939 protein [Xenopus tropicalis] >gi|52345980|ref|NP_001005033.1| MGC88939 protein [Xenopus tropicalis] BX511269 2.83E-36 Zebrafish DNA sequence from clone CH211-207N9 in linkage group 20, complete sequence Zebrafish DNA sequence from clone CH211-207N9 in linkage group 20, complete sequence No info No info No info 1772
EA_Pp_50010a EA_Pp_50010a TCGTTTTGTATACTGTACCGTCTGTGTGATATATGTGGCATTGTCATGGAATACAGACAG FHM_JGI_only_filt.4882.C1___1_nrnt FHM_JGI_only_filt.4882.C1___1_nrnt AAH45372 0 Ubiquitin-activating enzyme E1C [Danio rerio] >gi|47087337|ref|NP_998632.1| ubiquitin-activating enzyme E1C [Danio rerio] BC045372 0 Danio rerio zgc:55528, mRNA (cDNA clone MGC:55528 IMAGE:2642085), complete cds Ubiquitin-activating Enzyme E1C / GO:0006464; protein modification GO:0006512; ubiquitin cycle GO:0008372; cellular component unknown GO:0016874; ligase activity GO:0005524; ATP binding GO:0008642; ubiquitin-like activating enzyme activity GO:0003824; catalytic activity GO:0004839; ubiquitin activating enzyme activity GO:0000166; nucleotide binding 13278
EA_Pp_50012a EA_Pp_50012a CATTGGACAGATTGCCAATATGTTTGTGCAGTATCTTAATAAGAGCATGCATTAACAGGG FHM_JGI_only_filt.12811.C1___1_nrnt FHM_JGI_only_filt.12811.C1___1_nrnt XP_708020 0 PREDICTED: similar to CG3587-PA isoform 2 [Danio rerio] AL935332 0 Zebrafish DNA sequence from clone DKEY-77F17 in linkage group 18, complete sequence Similar To CG3587-PA / No info No info GO:0016787; hydrolase activity 3408
EA_Pp_50013a EA_Pp_50013a ACGTCAGTTTATAATGTAATAAAGACTAAAGATGCCTGACACCCATCTGTTTTTACACAC FHM_JGI_only_filt.9377.C1___1_nrnt FHM_JGI_only_filt.9377.C1___1_nrnt AAH90291 0 Zgc:110779 [Danio rerio] >gi|61651794|ref|NP_001013336.1| hypothetical protein LOC503740 [Danio rerio] BC029527 1.73E-11 Homo sapiens transcript expressed during hematopoiesis 2, mRNA (cDNA clone MGC:33894 IMAGE:5302828), complete cds Gene Trap Locus F3b / GO:0000004; biological process unknown GO:0008372; cellular component unknown GO:0005554; molecular function unknown 5873
EA_Pp_50015a EA_Pp_50015a ACTACGATCGCGATTACTCTGAAGAGAATTTAATTCCTCGGATATCGTTCTTTATGTCCT FHM_JGI_only_filt.582.C1___1_nrnt FHM_JGI_only_filt.582.C1___1_nrnt NP_001002621 0 hypothetical protein LOC436894 [Danio rerio] >gi|49904398|gb|AAH75965.1| Zgc:92254 [Danio rerio] BC075965 0 Danio rerio zgc:92254, mRNA (cDNA clone MGC:92254 IMAGE:7052832), complete cds Zgc:92254 / GO:0008152; metabolism GO:0005737; cytoplasm GO:0016740; transferase activity GO:0004364; glutathione transferase activity 10061
EA_Pp_50016a EA_Pp_50016a TGTTGCTTTTAAACTTGTTCTTAACATATGCACACCTTCGAGTTCTAGCGTTGATGTTAC FHM_JGI_only_filt.4439.C2___1rc_nrnt-1 FHM_JGI_only_filt.4439.C2___1rc_nrnt-1 XP_694749 0 PREDICTED: similar to testis expressed sequence 14 isoform b [Danio rerio] AC091299 5.39E-30 Danio rerio clone 126H19, complete sequence Similar To Testis Expressed Sequence 14 Isoform B / No info No info No info 8858
EA_Pp_50018a EA_Pp_50018a CAGGGGAAAACTAAGCAAAACTGACATCAGCTAAGAAGCTAAAGGATAAAGATTTCTTCG gi_73464634_gb_DT204583.1_DT204583___1_nr0nt1 73464634 DT204583.1 CAF92935 0.0482943 unnamed protein product [Tetraodon nigroviridis] BX088719 0 Zebrafish DNA sequence from clone CH211-207H2 in linkage group 17, complete sequence Zebrafish DNA sequence from clone CH211-207H2 in linkage group 17, complete sequence No info No info No info 5449
EA_Pp_50019a EA_Pp_50019a CAACCATTTCTGTGACAAGAAGAACAAGCCCAAAGACAAGAAAAGGCCGTGCAACTTGGA gi_73571418_gb_DT269469.1_DT269469___1_nrnt 73571418 DT269469.1 CAG00733 0 unnamed protein product [Tetraodon nigroviridis] AC144710 0 Danio rerio clone CH211-215E4, complete sequence ADAM Metallopeptidase With Thrombospondin Type 1 Motif, 10 / GO:0006508; proteolysis GO:0005578; extracellular matrix (sensu Metazoa) GO:0004222; metalloendopeptidase activity GO:0008233; peptidase activity GO:0046872; metal ion binding GO:0008270; zinc ion binding 8534
EA_Pp_50020a EA_Pp_50020a TTAACCAGTAATAACCAACAATTACATCGGAACCCTGGGGGGTTATAATGAATGCATCCA FHM_JGI_only_filt.281.C1___1_nrnt FHM_JGI_only_filt.281.C1___1_nrnt AAH81508 0 Intraflagellar transport protein 20 [Danio rerio] >gi|56118556|ref|NP_001001833.2| intraflagellar transport protein 20 [Danio rerio] NM_001001833 0 Danio rerio intraflagellar transport protein 20 (ift20), mRNA Intraflagellar Transport Protein 20 / GO:0042073; intraflagellar transport GO:0019861; flagellum No info 12766
EA_Pp_50021a EA_Pp_50021a TTGGTTGGGGAGTGTTACTGGAAACACTATATGTTTATGCAAATCTACAGCAAGCAACAA FHM_JGI_only_filt.6786.C1___1_nr0nt1_minus FHM_JGI_only_filt.6786.C1___1_nr0nt1_minus NP_471525 2.12138 hypothetical protein lin2192 [Listeria innocua Clip11262] >gi|16414705|emb|CAC97421.1| lin2192 [Listeria innocua] >gi|25515841|pir||AE1706 hypothetical protein homolog lin2192 [imported] - Listeria innocua (strain Clip11262) BX119965 6.31E-22 Zebrafish DNA sequence from clone RP71-86I6 in linkage group 14, complete sequence Zebrafish DNA sequence from clone RP71-86I6 in linkage group 14, complete sequence No info No info No info 2693
EA_Pp_50022a EA_Pp_50022a TGTGTGAAGGACAGAGGCTCACAGACACAGCACTGGTTGGCTATTTTCATGGTTCATTAT gi_73694665_gb_DT344771.1_DT344771___1rc_nr0nt1 73694665 DT344771.1 No Hit No info No info BX537162 0 Zebrafish DNA sequence from clone DKEY-9A20 in linkage group 4, complete sequence Myeloid/lymphoid Or Mixed-lineage Leukemia 5 / GO:0006355; regulation of transcription, DNA-dependent No info GO:0008270; zinc ion binding GO:0005515; protein binding 9430
EA_Pp_50023a EA_Pp_50023a GACGGTCCAACACAAAGAGGCAGAATTCTTGCAAACACTCCTTCCAGGTTACTTCATGAA FHM_JGI_only_filt.3103.C1___1_nrnt FHM_JGI_only_filt.3103.C1___1_nrnt NP_001018438 0 hypothetical protein LOC553629 [Danio rerio] >gi|63102411|gb|AAH95318.1| Hypothetical protein LOC553629 [Danio rerio] XM_345245 1.89E-16 Rattus norvegicus similar to phosphatidylinositol-4-phosphate 5-kinase, type 1 beta (LOC365865), mRNA Phosphatidylinositol-4-phosphate 5-kinase, Type I, Alpha / GO:0000004; biological process unknown GO:0005795; Golgi stack GO:0008372; cellular component unknown GO:0016020; membrane GO:0016308; 1-phosphatidylinositol-4-phosphate 5-kinase activity GO:0016301; kinase activity GO:0016740; transferase activity 213
EA_Pp_50025a EA_Pp_50025a CCCAGTCAGCCCATCACCTCAGCTGAGCTCCAGAAGACCGAGGCATTGATCAAAGAGGAA FHM_JGI_only_filt.6722.C1___1_nrnt FHM_JGI_only_filt.6722.C1___1_nrnt AAL92552 0 neogenin [Danio rerio] AY029280 7.74E-36 Danio rerio neogenin mRNA, complete cds Neogenin 1 / GO:0001841; neural tube formation GO:0006468; protein amino acid phosphorylation GO:0007399; nervous system development GO:0001756; somitogenesis GO:0016021; integral to membrane GO:0005524; ATP binding GO:0005021; vascular endothelial growth factor receptor activity 4332
EA_Pp_50026a EA_Pp_50026a CCAATGGATTTTCGGCCGATTGAGGATGTTAAATGAGATCACTCTGATTGGCTGTTCAGC gi_72710278_gb_DT135832.1_DT135832___1_nr0nt1 72710278 DT135832.1 CAG03280 3.82234 unnamed protein product [Tetraodon nigroviridis] BX511190 0 Zebrafish DNA sequence from clone RP71-80D18 in linkage group 5, complete sequence Zebrafish DNA sequence from clone RP71-80D18 in linkage group 5, complete sequence No info No info No info 1607

Total number of rows: 15208

Table truncated, full table size 8459 Kbytes.




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