NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Platform GPL5116 Query DataSets for GPL5116
Status Public on May 09, 2007
Title CSHL Arabidopsis thaliana (ecotype Columbia) Chromosome 4 Genomic Tiling Array
Technology type spotted DNA/cDNA
Distribution non-commercial
Organism Arabidopsis thaliana
Manufacturer Cold Spring Harbor Laboratory
Manufacture protocol PCR was performed in 100 ul volume using 100 pmole of each primer, and either BAC (20-40 pg) or genomic (100ng) DNA. Reactions were systematically analyzed by agarose gel electrophoresis. Approximately 5% of PCRs failed to give any product or gave multiple products or products of the wrong size. PCR products (2-8ug) were purified using Millipore Multiscreen FB Plates (MAFBN0B50), eluted in 60ul of 50% DMSO, and dispensed in 1536-well plates. Microarray slides (UltraGAPS, Corning) were printed using a MicroGrid arrayer (Genomic Solutions).
 
Description The entire TIGR4 Arabidopsis thaliana ec. Col chromosome 4 assembly was used to design a genomic tiling microarray. This ~18.6 Mb sequence represented on the microarray starts downstream of the nucleolar organizing region (NOR) comprising the 5’ terminus of the chromosome. Notably, it contains several megabases of pericentromeric heterochromatin. In the microarray design, annotation was intentionally ignored, thus ensuring that repeated and unique sequences were equally represented. PCR primer pairs were selected using the Primer3 software. Probe selection was first accomplished by BLASTN analysis of sequential 100-bp windows of sequence along chromosome 4 against the whole genome to discriminate between unique and repeated DNA. Whenever a window gave at least one hit with 85% identity elsewhere in the genome, that window was marked as repeated, or unique otherwise. This information was then used to define "repeated" and "unique" segments of at least 300bp along the chromosome, as follows. Repeat segments were composed of successive repeat windows, possibly interrupted by series of contiguous unique windows spanning less than 300bp in each case. Conversely, unique segments were composed of successive unique windows, never interrupted by more than 300bp of contiguous repeat windows. Series of alternate unique and repeated windows were treated as repeat segments. Within each repeated or unique segment, PCR primer pairs were then selected using the Primer3 software and a routine that ensured maximum coverage of the segment and limited overlap between successive probes. Briefly, primer pairs were designed from both ends of the segment, considering sequential 1.2 kb windows, amplicon sizes ranging from 850 bp to 1.2 kb (optimum 1 kb) and primers (19-23 nt each, optimum 21 nt, 40-60% GC) with similar melting temperatures in the 57°C­63°C range (optimum 60°C). Each new 1.2 kb window was positioned 50 bp within the end of the preceding amplicon. Successive amplicons could therefore overlap by up to 50 bp or be separated by up to 250 bp. When no primer pair was found in a given window, window size was increased to 1.4 kb, and if still unsuccessful, amplicons were finally designed using the forward and reverse primers of the upstream and downstream amplicons, respectively. When the last (central) window of a segment was less than 1.2kb but more than 300bp, primer pair selection was carried out by considering the actual size of that window plus 50bp on either side. Using this approach, 21,405 amplicons were designed with an average size of ~950bp. An additional 356 amplicons were designed that cover 36 genes of interest and neighboring sequences located on the other 4 chromosomes. Most amplicons were produced using BAC clones as templates, and all amplicons were verified by gel electropheresis.
 
Contributor(s) Vaughn MW, Tanurdzic M, Lippman ZB, Rabinowicz PD, Dedhia N, McCombie WR, Agier N, Bulski A, Colot V, Martienssen RA
Submission date Apr 23, 2007
Last update date May 09, 2007
Contact name Matthew Wayne Vaughn
E-mail(s) [email protected]
Phone (512) 232-7124
Organization name University of Texas at Austin
Department Texas Advanced Computing Center
Lab Vaughn
Street address 10100 Burnet Rd
City Austin
State/province TX
ZIP/Postal code 78758
Country USA
 
Samples (6) GSM183556, GSM183557, GSM183558, GSM754840, GSM754841, GSM754842
Series (2)
GSE7580 Epigenetic natural variation in Arabidopsis thaliana
GSE30433 Arabidopsis thaliana chromosome 4 replicates in two phases that correlate with chromatin state

Data table header descriptions
ID
RANGE_GB GenBank accession
RANGE_START Indicates the start position relative to the RANGE_GB accession
RANGE_END Indicates the end position relative to the RANGE_GB accession
RANGE_STRAND Indicates the strand relative to the RANGE_GB accession
SEQUENCE Nucleotide sequence of probe

Data table
ID RANGE_GB RANGE_START RANGE_END RANGE_STRAND SEQUENCE
ta38g01 NC_003075.3 2940655 2941670 + GGAGTCAAATATGACTAGATGTCATGTGTATGATTGAGAATAAGAACTAGAATGGCAACCGATTCCCAATAGCTAAAGTTATGTTTCCTTGTTAGAAGATACAAAGCCAAAGACTCATACGGACTTCGTGTACACCATCAAAATTTTGAGAAGCAATAAGAAGCTTGGTTAGTATTTTAGAGTGAAATATTACAGGATATCATGTGTATCATTGAGTATAAGAACTAGAACCGCAACCGATTCCCAAAAGCTAAAGTAATGTTTCTTGTTTGTAGATACAAATCCAAAGACTCATACCGACTTCGGCTACACCATCAAAGCTTTGTGAGGCAATAAGAAGCTTGGTTAGTTTTTCGGAATCAAATATGGCTAGATGTCATGTGTATGATTGAGTATAAGAACTAGAACCGCAACTAATTCCCAAAAGCTAAATTAATGTTTCCTTGTTAGAAGATACAAAGCTAAAAACTCATACGGACTTCGGCTAAGCCATTAATGTTTTGAGAAGCAATAGGAAGCTTAGTTATTTTTTTGGAGTCAAATATGACTAGATGTCATGTGTATGATTAAGTATAAGAACTAGAACCGCAACCGATTCCCAAAAGCTAAAGTAATGTTTCCTTGTTTGAAGACACAAAGTCAAAGACTCATACGGACTTCGGCTACACCATCAAAACTTTGTGAGGCAATAAGAAGCTTCGTTAGTTTTTTGGAGTCAAATACGACTAGATGTCATGTGTATGATTAAGTATAAGAACTAGAACCATAACTGATTCCCAAAAGCTAAAGTAATGTTTCCTTGTTAGAAGATACAAAGCTAAAAACTCATACGGACTTCGGCTAAGCCATCAAAATTTTGAGAAGCAATAAGAAGCTTGGTTAGTGTTTTGGAGTCAAATATGACTAGATGTCATGTGTATGATTGAGTATAAGAACTAGAACCGCAACCGTTTCCCAAAAGCTAAAGTAGTGTTTCCTTGTTAGAAGCTACAAAGCCAAAGACTCATACGGACTTC
ta38g02 NC_003075.3 2941833 2942799 + AACTCATACGGACTTTGGCTACACCATCAAAGCTTTAAGAAGCAACAAGAAGTTTGGTTAGTGTTTTGGAGTAAAAAACGACTATATCTCATGTGTAGTATTGAGTATAAAAACTAGAACCGCAACTGGTTCCCAAAAGAAAAAGTAGTGTTTCCTTGTTAGAAGATACAAAGCCAAAGACTCATACGGACTTCGGCTACACCATGAAAATTTTGAGAAGCAATAAGAAGCTTGGTTAGTGTTTTGGAGTCAAATATGACTAGATGTCATGTGTATGATTGAGTATAAGAACTAGAATGGCAACCGATTCCCAATAGCTAAAGTTATGTTTCCTTGTTTGAAGATACAAAGCCAAAGACTCATACGGACTTCGTGTACACCATCAAAATTTTGAGAAGCAATAAGAAGCTTGGTTAGTATTTTAGAGTCAAATATTACAGGATATCATGTGTATATTGAGTATAAGAACTAGAACCGCAACCGATTCCCAAAAGCTAAAGTAATGTTTCTTGTTTGTAGATACAAAGCCAAAGACTCATACCGACTTCGGCTACACCATCAAAGCTTTGTGAGGCAATAAGAAGCTTGGTTAGTTTTTCGGAATCAAATATGGCTAGATGTCATGTGTATGATTGAGTATAAGAACTAGAACCGTAACTAATTCCCAAAAGCTAAATTAATGTTGCCTTGTTAGAAGATACAAAGCTAAAAACTCATACGGACTTCGGCTAAGCCATTAATGTTTTGAGAAGCAATAGGAAGCTTGGTTATTTTTTTGGAGTCAAATATGACTAGATGTCATGTGTATGATTGAGTATAAGAACTAGAACCGCAACCGATTCCCAAAAGCTAAAGTAATGTTTCCTTGTTTGAAGACACAAAGTCAAAGACTCATACGGACTTCGGCTACACCATCAAAACTTTGTGAGGCAATAAGAAGCTTCGTTAGTTTTTTGGAGTCAAATAT
ta38g03 NC_003075.3 2942888 2943864 + ACAAAGCTAAAAACTCATACGGACTTCGGCTAAGCCATCAAAATTTTGAGAAGCAATAAGAAGCTTGGTTAGTGTTTTGGAGTCAAATATGACTAGATGTCATGTGTATGATTGAGTATAAGAACTAGAACCGCAACCGTTTCCCAAAAGCTAAAGTAGTGTTTCCTTGTTAGAAGCTACAAAGCCAAAGACTCATACGGACTTCGGCTACACCATCAAAGTTTTGAGAAGCAATAAGAAGCTTGGTTAGTATTTTGGAGTCAAATAAGACAAGATGTTATGTGTTTGATTGAGTATAAGAACTAGAACCGCAACATCTTCCCAAAAGCTAAAGTTGTGTTTCCCTTCTAGAAGATACAAAGCCAAAAACTCATACGGACTTTGGCTACACCATCAAAGCTTTAAGAAGCAACAAGAAGTTTGGTTAGTGTTTTGGAGTCAAAAAAGACTATATGTCATGTGTAGTATTGAGTATAAAAACTAGAACCGCAACTGGTTCCCAAAAGCAAAAGTAGTGTTTCCTTGTTAGAAGATACAAAGCCAAAGACTCATACGGACTTCGGCTACACCATGAAAATTTTGAGAAGCAATAAGAAGCTTGGTTAGTGTTTTGGAGTCAAATATGACTAGATGTCATGTGTATGATTGAGTATAAGAACTAGAATGGCAACCGATTCCCAATAGCTAAAGTTATGTTTCCTTGTTAGAAGATACAAAGCCAAAGACTCATACGGACTTCGTGTACACCATCAAAATTTTGAGAAGCAATAAGAAGCTTGGTTAGTATTTTAGAGTCAAATATTACAGGATATCATGTGTATCATTGAGTATAAGAACTAGAACCGCAACCGATTCCCAAAAGCTAAAGTAATGTTTCTTGTTTGTAGATACAAAGCCAAAGACTCATACCGACTTCGGCTACACCATCAAAGCTTTGTGAGGCAATAAGAAGCTTGGTTAGTTTTTCGGAATCAAAT
ta38g06 NC_003075.3 2945437 2946010 + AAGCTTGGTTAGTGTTTTGGAGTCAAATATGACTAGATGTCATGTGTATGATTGAGTATAAGAACTAGAACCGCAACCGTTTCCCAAAAGCTAAAGTAGTGTTTCCTTGTTAGAAGCTACAAAGCCAAAGACTCATACGGATTTCGGCTACACCATCAAAGTTTTGAGAAGCAATAAGAAGCTTGGTTAGTATTTTGGAGTCAAATAAGACAAGATGTTATGTGTTTGATTGAGTATAAGAACTATAACCGCAACATCTTCCCAAAAGCTAAAGTTGTGTTTCCCTTCTAGAAGATACAAAGCCAAAAATTCATACGGACTTTGGCTACACCATCAAAGCTTTAAGAAGCAACAAGAAGTTTGGTTAGTGTTTTGGAGTCAAAAAAGACTATATGTCATGTGTAGTATTGAGTATAAAAACTAGAACCGCAACTGGTTCCCAAAAGCAAAAGTAGTGTTTCCTTGTTAGAAGATACAAAGCCAAAGACTCATACGGACTTCGGCTACACCATGAAAATTTTGAGAAGCAATATGAAGCTTGGTTAGTGTTTTGGAGTCAAATATGACTAGATGT
ta38g07 NC_003075.3 2945992 2946997 + GTCAAATATGACTAGATGTCATGTGTATGATTGAGTATAAGAACTAGAACCGCAACCGTTTCCCAAAAGCTAAAGTAGTGTTTCCTTGTTAGAAGCTACAAAGCCAAAGACTCATACGGACTTCGGCTACACCATCAAAGTTTTGAGAAGCAATAAGAAGCTTGGTTAGTATTTTGGAGTCAAATAAGACAAGATGTTATGTGTTTGATTGAGTATAAGAACTAGAACCGCAACATCTTCCCAAAAGCTAAAGTTGTGTTTCCCTTCTAGAAGATACAAAGCCAAAAACTCATACGGACTTTGGCTACACCATCAAAGCTTTAAGAAGCAACAAGAAGTTTGGTTAGTGTTTTGGAGTAAAAAACGACTATATCTCATGTGTAGTATTGAGTATAAAAACTAGAACCGCAACTGGTTCCCAAAAGCAAAAGTAGTGTTTCCTTGTTAGAAGATACAAAGCCAAAGACTCATACGGACTTCGGCTACACCATGAAAATTTTGAGAAGCAATAAGAAGCTTGGTTAGTGTTTTGGAGTCAAATATGACTAGATGTCATGTGTATGATTGAGAATAAGAACTAGAATGGCAACCGATTCCCTATAGCTAAAGTTATGTTTCCTTGTTAGAAGATACAAAGCCAAAGACTCATACGGACTTCGTGTACACCATCAAAATTTTGAGAAGCAATAAGAAGCTTGGTTAGTATTTTAGAGTGAAATATTACAGGATATCATGTGTATCATTGAGTATAAGAACTAGAACCGCAACCGATTCCCAAAAGCTAAAGTAATGTTTCTTGTTTGTAGATACAAATCCAAAGACTCATACCGACTTCGGCTACACCATCAAAGCTTTGTGAGGCAATAAGAAGCTTGGTTAGTTTTTCGGAATCAAATATGGCTAGATGTCATGTGTATGATTGAGTATAAGAACTAGAACCGCAACTAATTCCCAAAAGCTAAATTAATGTTTCCTTGTTAGAAGATACAAAGCTAAAAACTCATAC
ta38g10 NC_003075.3 2949182 2950195 + TTAGTATTTTAGAGTGAAATATTACAGGATATCATGTGTATCATTGAGTATAAGAACTAGAACCGCAACCGATTCCCAAAAGCTAAAGTAATGTTCTTGTTTGTAGATACAAAGCCAAAGACTCATACCGACTTCGGCTACACCATCAAAGCTTTGTGAGGCAATAAGAAGCTTGGTTAGTTTTTCGGAATCAAATATGGCTAGATGTCATGTGTATGATTGAGTATAAGAACTAGAACCGCAACTAATTCCCAAAAGCTAAATTAATGTTTCCTTGTTAGAAGATACAAAGCTAAAGACTCATACGGACTTCGGCTAAGCCATTAATGTTTTGAGAAGCAATAGGAAGCTTGGTTATTTTTTTGGAGTCAAATATGACTAGATGTCATGTGTATGATTGAGTATAAGAACTAGAACCGCAACCGTTTCCCAAAAGCTAAAGTAGTGTTTCCTTGTTAGAAGCTACAAAGCCAAAGACTCATACGGACTTCGGCTACACCATCAAAGTTTTGAGAAGCAATAAGAAGCTTGGTTAGTATTTTGGAGTCAAATAAGACAAGATGATATGTGTTTGATTGAGTATAAGAACTATAACCGCAACATCTTCCCAAAAGCTAAAGTTGTGTTTCCCTTCTAGAAGATACAAAGCCAAAAACTCATACGGACTTTGGCTACACCATCAAAGCTTTAAGAAGCAACAAGAAGTTTGGTTAGTGTTTTGGAGTCAAAAAAGACTATATGTCATGGGTAGTATTGAGTATAAAAACTAGAACCGCAACTGGTTCCCAAAAGCAAAAGTAGTGTTTCCTTGTTAGAAGATACAAAGCCAAAGACTCATACGGACTTTGGCTACACCATCAAAGTTTTGAGAAGCAATAAGTAGCTTGGTTAGTATTTTGGAGTCAAATAAGACAAGATGTTATGTGTTTGATTGAGTATAAGAACTATAACCGCAACATCTTCCCAAAAGCTAAAGTTGTGTTTCCCTTCTAGAAGATACAAAGCCAAAAACTC
ta38h03 NC_003075.3 2954458 2955424 + GACTCATACCGACTTCGGCTACACCATCAAAGCATTGTGAGGCAATAAGAAGCTTAGTTAGTTTTTCGGAATCAAATATGGCTAGATGTCATGTGTATGATTGAGTATAAGAACTAGAACCGCAACTAATTCCCAAAAGCTAAATTAATGTTTCCTTGTTAGAAGATACAAAGCTAAAAACTCATACGGACTTCGGCTAAGCCATCAAAATTTTGAGAAGCAATAAGAAGCTTGGTTAGTGTTTTGGAGTCAAATATGACTAGATGTCATGTGTATGATTGAGTATAAGAACTAGAACCGCAACCGTTTCCCAAAAGCTAAAGTAGTGTTTCCTTGTTAGAAGCTACAAAGCCAAAGACTCATACGGACTTCGGCTACACCATCAAAGTTTTGAGAAGCAATAAGAAGCTTGGTTAGTATTTTGGAGTCAAATAAGACAAGATGATATGTGTTTGATTGAGTATAAGAACTATAACCGCAACATCTTCCCAAAAGCTAAAGTTGTGTTTCCCTTCTAGAAGATACAAAGCCAAAAACTCATACGGACTTTGGCTACACCATCAAAGCTTTAAGAAGCAACAAGAAGTTTGGTTAGTGTTTTGGAGTCAAAAAAGACTATATGTCATGTGTAGTATTGAGTATAAAACCTAGAACCGCAACTGGTTCCCAAAAGCAAAAGTAGTGTTTCCTTGTTAGAAGATACAAAGCCAAAGACTCATACGGACTTCGGCTACACCATGAAAATTTTGAGAAGCAATAAGAAGCTTGGTTAGTGTTTTGGAGTCAAATATGACTAGATATCATGTGTATCATTGAGTATAAGAAGTAGAACCGCAACCGATTCCCAAAAGCTAAAGTAATGTTTCTTGTTTGTAGATACAAAGCCAAAGACTCATACCGACTTCGGCTACACCATCAAAGCTTTGTGAGGCAATAAGAAGCTTGGTTAGTTTTTCGGAATCAAATA
ta38h04 NC_003075.3 2955510 2956493 + AGATACAAAGCTAAAAACTCATATGGACTTCGGCTAAGCCATTAATGTTTTGAGAAGCAATAAGAAGCTTGGTTATTTTTTTGGAGTCAAATATGACTAGATGTCATGTGTATGATTGAGTATAAGAACTAGAACCGCAACCGTTTCCCAAAAGCTAAGGTAGTGTTTCCTTGTTAGAAGTTACAAAGCCAAAGAATCATATGGAATTCAGCTACACCATCAAAGCTTTGAGAAGCAATAAGAAGCTTTGTTAGTTTTTTGGAGTCAAATATGACAAGATGTTATGTGTTTGATTGAGTATAAGAACTAGAACCGCAACATCTTCCCAAAAGCTAAAGTTGTGTTTCCCTTCTAGAAGATACAAAGCCAAAAACTCATACGGACTTTGGCTACACCATCAAAGCTTTAAGAAGCAACAAGAAGTTTCGTTAGTGTTTTGGAGTCAAAAAAGACTATATGTCATGTGTAGTATTGAGTATTAAAACTAGAACCGCAACTGGTTCCCAAAAGCAAATTTAGTGTTTCCTTGTTAGAAGATACAAAGCCAAAGACACATACGGACTTCGGCTACACCATGAAAATTTTGAGAAGCAATAAGAAGCTTGGTTAGTGTTTTGGAGTCAAATATGACTAGATGTCATGTGTATGATTGAGTATAAGAACTAGAATGGCAACCGATTCCCAATAGCTAAAGTTATGTTTCCTTGTTAGAAGATACAAAGCCAAAGACTCATACGGACTTCGTGTACACCATCAAAATTTTGAGAATCAATAAGAAGCTTGGTTAGTACTTTAGAGTGAAATATTACAGGATATCATGTGTATCATTGAGTATAAGAACTAGAACCGCAACCGATTCCCAAAAGCTAAAGTAATGTTTCTTGTTTGTAGATACAAAGCCAAAGACTCATACCGACTTCGGCTACACCATCAAAGCTTTGTGAGGCAATAAGAAGCTTGGTTAGTTTTTCGGAATCAAATATG
ta38h06 NC_003075.3 2957547 2958549 + TTGGAGTCAAATATGACTAGATGTCATGTGGATGATTGAGTATAAGAACTAGAACCGCAACCGGTTTCCAAAGGCTAAAGTAGTGTTTCCTTGTTACAAGATACAAAGCCAAAGACTCATACGGACTTCGGCTACACCATCAAAGCTTTGAGAAGTAATAAGAAGCTTGCTTAGTATTTTGGAGTCAAATAAGACAAGATGTTATGTGTTTGATTGAGCATAAGAACTAGAACCGCAACATCTTCCCAAAAGCTAAAATAGTGTTTCACTTCTAGAGGATAGAAAGCCAAAAACTCATAGAGACATCTACTACACCATCAAAGCTTTAAGAAGCAACAAGAAGTTTGGTTAGTAATTTGGAGTCAAATAAGACTATATGTCATGTGTAGTATTGAGTATAAGAACTAGAACCGCAACCGGTTCCCAAAAGCAAAAGTAGTGTTTCCTTGTCAAAAGATACAAAGCCAAAGACTCATACGGACTTCGGCTACACCATGAAAGTTTTGAGAAGCAATAAGAAGCTTGGTTAGTGTTTTGGAATCAAATATGACTAGATGTAATGTGTATGATTGAGTATAAGAACTAGAACGGCAACCGATTCCCAATAGCTAAAGTTATGTTTCCCTGTTAGAAGATACAAAGCCAAAAACTCATACGGACTTCGGATACACCATCAAAATTTTGAGAAGCAATAAGAAGCTTGGTTAGTATTTTAGAGTCAAATATTACAGGATGTCATGTGTATCATTGAGTATAAGAACTAGAACCGCAACCAATTCCCAAAAGCTAAAGTAATGTTTCCTTGTTTGAAGATACAAAACCAAAGAGTCATACGGACATCGGCTACACCATCAAAGCTTTGTAAGGCAATAAGAAGCTTGGTTAGTTTTTTGGAGTCAAATATGACTAGATGTCATGTGTATGATTGAGTATAAGAATTAGAACGGCAACCGATTCCCAATAGCTAAAGTTATGTTTTCTTGTTAGAAGATACAAAGCCAAA
ta38h08 NC_003075.3 2959612 2960579 + CTCATACGGACTTCGGCTACACCATGAAAGTTTTGAGAAGCAATAAGAAGCTTGGTTAGTGTTTTGGAATCAAATATGACTAGATGTCATGTGTATGATTGAGTATAAGAACTAGAACGGCAACCGATTCCCAATTGCTAAAGTTATGTTTCCCTATTAGAAGATACAAAGCCAAAAACTCATACAGACTTCGGATACACCATCAAAATTTTGAGAAGCAATAAGAAGATTGGTTAGTATTTTAAAGTCAAATATTACAGGATGTTATGTGTATCATTGACTATAAGAATTAGAACCGCAACCGATTCCCAAAAGCTAAAGTAATGTTTCCTTGTTCAAAGATACAAAGCCAAAGACTCATACGGACTTCGGCTACACCATCAAAGCTTTGTGACGCAATAGGAAGCTTGGTTAGTTTTTCGGAGTCAAATATGACTAGATGTCATGTGTACGATTGAGTATAAGAACTAGAACCGCAACTGATTCCTAAAAACTAAAGTAATGTTTCTTTGTTAGAAGATACAAATCTAAAAACTCATACGGACTTCGGCTAAGCCATCCAAGTTCTGAGAAGCAATAAGAAGCTTGGTTAATGTTTTGGAGTCAAATATGACTAGATGTCATGTGTATGATTGAGTATAAGAACTAGAACCGCAACCGTTTCCCAAAAGCTAAAGTAGTGTTTCCTTGTTAGAAGATACAAAGCCAGAGAATCATAAGGACTTCAGCTACACCATCAAAGCTTTGAGAAGCAATAAGAAGCTATGTCAGCTTTTTGGAGTCAAATATGACTAGATGTAATGTGGATGATTGAGTATAAGAACTAAAACCGCAACTGGTTCCCAAGGGCTAAAGTAGTGTTTCCTTGTTAGAAGATACAAAGCCAAAGACTCATACGGACTTCGGCTACACCATCAAAGCTTTGAGAAGCAATAAGAAGCTTGCTTAGTATTTTGGAGTCAAATAAG
ta38h11 NC_003075.3 2962815 2963781 + CTCATACGGACTTCGTGTACACCATCAAAATTTTGAGAAGCAATAAGAAGCCTTGTTAGTGTTTTGGAGTCAAATATGACTAGATGTCATGTGTATGATTGAGTATAAGAACTAGAACCGCAACCGTTTCCCAAAAGCTAAAGTAGTGTTTCCTTGTTAGAAGCTACAAAGCCAAAGACTCATACGGACTTCGGCTACACCATCAAAGTTTTGAGAAGCAATAAGAAGCTTGGTTAGTATTTTGGAGTAAAATAAGACAAGATGTTATGTGTTTGATTGAGTATAAGAACTAGAACCGCAACATCTTCCCAAAAGCTAAAGTTGTGTTTCCTTTCTAGAAGATACAAAGCCAAAAACTCATACGGACTTTGGCTACACCATCAAAGCTTTAAGAAGCAACAAGAAGTTTGGTTAGTGTTTTGGAGTAAAAAAAGACTATATCTCATGTGTAGTATTGAGTATAAAAACTAGAACCGCAACTGGTTCCCAAAAGCAAAAGTAGTGTTTCCTTGTTAGAAGATACAAAGCCAAAGACTCATACGGACTTCGGCTACACCATGAAAATTTTGAGAAGCGATAAGAAGCTTGGTTAGTGTTTTGGAGTCAAATATGACTAGATGTCATGTGTATGATTGAGAATAAGAACTAGAATGGCAACCGATTCCCAATAGCTAAAGTTATGTTTCCTTGTTAGAAGATACAAAGCCAAAGACTCATACGGACTTCGTGTACACCATCAAAATTTTGAGAAGCAATAAGAAGCTTGGTTAGTATTTTAGAGTGAAATATTATAGGATATCATGTGTATCATTGAGTATAAGAACTAGAACCGCAACCGATTCCCAAAAGCTAAAGTAATGTTTCTTGTTTGTAGATACAAATCCAAAGACTCATACCGACTTCGGCGACACCATCAAAGCTTTGTGAGGCAATAAGAAGCTTGGTTAGTTTTTCGGAATCAAATATG
ta39b01 NC_003075.3 2977665 2978648 + ACGGACTTCAGCTACACTATTAAAGTTTTGAGAAGCAATAAGAAGCTTGGTTAGTGTTTTGGAGTCAAATATGACTAGATGTCATGTGTATGATTGAGTATAAGAACTAGAACTACAACCGGTTCCCAAAATCTAAAGTAGTGTTTCCTTGTTAGAAAATACAAAGCCGAAGACTCATACGTACTTCGGCTACACCATCAATGCTTTGAGAAGCAATAAGAAGCTTGGTTAGTATTTTGGAGTCAAATAAGACAAGATGTTATGTGTTTGATTGAGTATAAGAACTAGAACCGCAACATCTTCCCAAAAGCTAAAGTAATATTTCCCTTCTAGAAGATACAAAGCCAAAAAGTCATAAGGACTTCGGCTACACCATCAAAGCTTTAAGAAGCACCAAGAAGTTTGGTTAGTGTTTTGGAGTCAAATAAGACTATATGTCATGTGTAGTATTGAATATAAGAACTAGAATCGCAACCGGTTCCCAAAAGCCAAAGTAGTGTTGCCTTGTTAGAAGATAGAAAGCCAAATACTCATACGGACTTTGGCTTCACCATAAAAGTTTTGAGAAACAATAAGAAGCTTGGTTAGTGTTTTCCAGTCAAATATAACTGGATGTCATTTATATGATTGAGTATAAGACCTAGAACCACAACCGGTTCCGAAAAGTTAAAGTTGTGTTTCCTTGTTAGGAGATACAAAGCCAAAGACTCATACGGACTTTGGCTACAGCATATAAGCTTTGAGAAGCATGAAGAAGCTAGGTTAATGTTTTGGAGTCAAGTATGACAAGATGTCATGTGTATGATTGAGTATAAGAACTAGAACCGCAACCTGTTCCCAAAACGTAAAGTAGTGTTTCCTTATTAGAAGATAGAAAGACAAATACTCATACGGACTTTGGCTTCACCATAAAAGTTTTGAGAAACAATAAGAAGCTTGGTTAGTGTTTTCGAGTCAAATATGACTAGATGTCTTTTATATGAT
ta39g09 NC_003075.3 3039850 3040826 + ATGACTAGATGTCATGTCTATGATTCTATATAAGAACTAGAACCACAATTAGTTCCTAAAAGCTAAAGTAGTACTGTTTCCTTATACTCAATCATACAGATGATATCTAGTCATATTTAACTCCAAAACACTAACCAAGCTTCTTATTGCTCATACACTTTGATGGTATACTAACAAGAAAACATTATTTTTGCTTTTGGGAACAGATTCATGTTCTAGTTCTTATACTAAATCATATACATGACATCTAGTCATGTTTGACTCCCATACACTAACCAAGATTCTTCCTGCTTCTCAAAGCTTTGATGGTGAAGCCGAAGTCCGTATGAGTCATTGTCTTCGTATCGTCTAACAAGGAAACACTACTTTAGCTTTTGGAACCGTTTGCGGTTCTAGTTCTTATACTCAATCATACACATGACATCTAGTCATATTTGACTCCAAAAAACTAACCAAGATCCTTATTGCTTCTCAAAAATTTGATGGTGTAGCCGAAGTCCGTATGCGTCTTTGGCTTTGTATCTTCTAACAAGAAAACACTACTTTAGCTTTTGGGAACCAGTTGCAGTCCTAGCTGTTAAACTCAATCGTACACATGACATCTAGTCATATTTAACTCCAAAACACTAACCAATCTTCTTATTGCTCATAAACTTTGATGGTATAGCCGAAGTCCGTATGAGTCTTTTGCTTTGTATCTTCTAACTTGGAAACACTACTTTAGCTATTGGGAACCTGTTGCGGTTCTAGTTCTTATACTCAATCGAACACATGACATCTAGTCATATTTGAGTCCAAAAAACTAACCAAGCTTCTTATTGCTTCTCAAAGCTTTGATGGTGTAGCCGAAATCCGTAAGAGTCTTTGGCTTTGTATTTTCTAACAAGGAAACATTACTTTAGCTTTTGGGAACCGGTTGCGGTTCTAGTTCTTATACTCAATCATACACATGACATATAGTCATATTTGACTCCACA
tc29a11 NC_003075.3 9634 10615 + CACACAGCTATACTGGAAATAAGACTTTAAAAAAGAGGAGATAAGAACACACCTGAGTCAATAATCTTATCACTTCCTAGAATAGACATAGCTTTGGCAATTGAAGACTCTTTCAAAGGGACAGATTTCCCCGAGGCCGTCCTGAACATTGGCAAAGTTTCAGCTGTATCCACTTGTCTCATTTGGGGAATTGAGCAATTTGTGTTCCGCAAATCTAAAGTGTAGCCAAGAACATGGAACATTCAAAAGATTTTCAGGAAACCATTTTCACCAACATTAAGTAACAATTCAAGGGAATTCAGAAACAAATGACTAGTCAAGGGAATTCAATACTGTCACATAAAGTACCTGAGTAAGTAACCTTCTCTGCTAAAATGGATTTGGCTTTAGCAATCGAAGACTCTTTAAGAACTACAGACTTCCCTAGCCCAGTCCTGAACATTGGGATTTCCCCAGGCATCGCTTCTTCCCGTGCTATAAGCTTCGAGCATCCTTGAAGCATCAAATAATAATTCAATCTCCTTTGAGTCACATGACAAACACGATTCGACAAAAAAAGGAAGAAACGAAGAATCACCTTGGAGCAAGAGATCGGCCATAGAAGGTAGAGGAGCTGTCGATTCGAGCGCCTTGGTTGGCGTAGAATCCGAGACGGACTGAAGAATCCGGCCAGCGACTTCCCACCGGAAACCATCGCCGCTGGAATCGGGAAATAATTGCCACGTCGACATTTATTCAGTTCTAGAGTTTCGAATTTTTCCGACTCGTCGTTCTCTGATTCAGCCGGAGAACTAAACCTCGCGATTCAGAATTGCCTACCACACCAAGAGTCGGGAGTGCGGAAATTTTATTTTTATATTTTCTGTTTTCTTTCCCCCCAAAACCATCACCAAAAATCTAAAAAGTTAAAAGACGGCGGGAAAGTTGAAAACGATTTGGGCCGAAATTAACTTTGGGCTTGGTTTTAACGACATAACGTCTC
tc29a12 NC_003075.3 10601 11574 + ACGACATAACGTCTCAAGACAAGTGAGTTAATGCCACGGCCTTTTATTGAGGTAAAAAAGGCACGAATGCTAACCGAAAATCGTTCCAAACAACAATTGCTTACGTGGACATTTTAAAACATCTGTTCAATGGTCATTGGTGACTGACTTCAATGAAAATTACATTGCAACAATAGCCAAGTATCACAGAAAGTTACATTGCAACAATTTCCACGTCAAATTTCTAAACATGCAGAACGGTAATTTACACGGGGAAGGCGCTGAGGAGGCGGAGGGTGCTACGGAGGGGATCGCAGGAACACCGATGAATGAGAAGAATCCAGAGGCGGCATGATCTTGCTCGTCGAGGAGAGTGGATGATGCTCTATAAACGGCCAACAATATGGTCGACGTACACCTAAAATGTCTTGCTACGTGGATGCACCACTAAACCTTTCAACTTTTTTGTGTTTTCTTTTCTTAATTAAACACAAGATTAATTAGGAAATCTTGTGTTTCGTTCCGTTTCGTTTCGATTTCTGGTTTCTTGTTTCTATTACTCAAATTATTGCTCGAGTGTTAGGTTTGCTTGTATCTATCCTTGTTTTTTCCGTGATTATGTAATTTGATTGGCCCTTGTAGTCGAGATGTTTGTAGCCTTGATGGCTCGGGGAAACTCAGAGAGAGAGTTGGTCCCGGTTGCATTCTCCGCTGTCTTACTGATACCATAAACACCGTTTGATCCATGATTGCCTCTATTGTATACTTGATGCTTCATGATATATGCATTCTCCATGTCTCTGTTTCATGTTTACGCATAAAAATATTATCAAGCCTCAAACTTGAATTCGGTTCAAAATCCTAGACATCCCCAAGAGGATCATAAACACAGTTTAGACTTGTTTTTCAATTAGCAAACAGTTGCTTGATAAGAAGTCATTCCTACAGCTCATGTGTAACACAATTCTCTCTCTTTTCTCCAACACCCCAACTAA
tc29b01 NC_003075.3 11570 12497 + ACTAAAACAATCTAAGCCGTTTCTGAATGTTTTCCGGATCTGCTGAGTCATAAATACGAGTGCTTTAGGCAGGCAAATAAGACTCCAGCATCAATTTGGCTGGGGAAGGTGTTAAAATCTCTACGATCAGGTACGTGTATTTCCATTCCTTCTCTGCCTTGTCTTTAAACATCTCCGTGTACACTTTCCCTGCTCCTTGAGGCCCACGGATGTAGAAGTTTACCTGAAGCATATTCAATTTTGATCATGTTAAACCTGCAAAACTCTAGACAATTTATATAGCAAGAATGTGAATCCAAGCGCAATAGAGGTTCTACAATGAAATACCTCAACATGCTCCACTCCGTCTTCATCTGTAAATACTCTGTTGGGTATACGTTGACGAGCAGCTCGGTTTCTAGTTTCTTGTCCATAGCCTTTGATGGGGGATCCAATCCTAACCCTCACCTAGTTAACAAGACAATCACAGTCACAGAAATTGTTTCATTTTATAAACAGATGCTTTTGTTTCATACACCACCCCTCCGCTATGATCAATCTGTAGAGTTAGTTTCTAATTACCTGACCATCATCTTGAATTCTCTTCAAGGCTTTGTCAAAGACCTTGTACCTAGAATACATAATGGTGTCTTTAGATTACTCAAATCCAAGTGTCTGAGCAGATAAATCAAATTAGATTTCTGAAGCCTCACTCTTTTGGTTGAAAAATGAGCTCTTTAAACACACCGTAGCCAGCAGCTCCAGCGACACCAAGCCCAGCCAGAATAACAAGACTGTAGGACGCACCTTCTGTAAAGGTCACCGGCTTCTCCGGGATGTGGTATGTAGGAGAATCAAAAGGATCCTCCACAGTCGTCACCTCTTTCTTAGCCTGTAAAACAATTGGCAAAGCAAGCATCATTATTAGATGACAGAAGCTGTCTGTCGC
tc29b02 NC_003075.3 12558 13499 + TGTAGGAAGAAACACCTTATTCTGCTGATTCCCAGGTTCTTTTGAAGTTCTTGATGCAAAAGATCTGGTAAAGTAAGATGAGTTGATGTTCTTTGGACGAGCTTCCGTACATATACTTGCTTGCGGGTTTCGGAAGCGAAACAATAGTCCTGTATAACAGACAATTGTCAGAACAACAAGGTACACATCAACACTAGGATTTGAAGTTTGATTACACAATTATCACTGCTGACCATTAGCTCCAGTAGAGTCCTGCATAAGAAAAACGATGAGAGGTATGAGACTAACATATAAGCCCAAAAGGGTGTAAAGAGCAAAGAAAATGTTGTCGAAGCAAATATTTAACAAGTAAAGGGAAGAAAATACCTTTGAAAGAAATGAGTTGCTAAAAACCCTCTTGGACTGATATATAACAAAAGTAACACTGTAAGTTTTCCCCAGATCAAGGACACTAGAGAGATTCAATTCAAACAGGACTAGAGACACTGAAAAAAACGACCTCAATTTTCACAAGATCCTAAACAATCCGTGTCTATGTAGTAGAAGAACCAATAGCTTTTAGCCAATATTATATAGAAATGCCGGCAGAGTGAGATGGAATACGAAAGCCTTACCGATTTTGGGATTCCGGAACAAGGTTGTGTAGCGGAGGAAAACGACGCCAGTTTCGATTTTGATTGGCGGCCGATGGCTATCGCTGATCTCCTTAAAAGATTCATCATCATCATCTCTGAACCACCAATATTACTGATTGAAAAATCGAAGTGGAGACGACGACGACGACGAGCGAGGTTGAATGAGCAAGGCAAAGCCGCTCGCCGTTGCTGGGGTTTTATCGTAGACACGTGACGCGCACGTGCAAGCTATTTCCTTGGGCTTGGGCTTAGACTCATGAGATAAAGCAAATAAAACCCAAATGGGCTTTTTAGAAAAGAAACCCAA
tc29b03 NC_003075.3 13628 14567 + TTTCGAACAAGCTGCTCGATCTTCGCGAATCCAGCACAGCGAGCCAAGAGGAAGCTGCTTGAGCTGATCTCCGAGGAGGATCGAGGTCTGAGAACCCAGAAAGACCCCAAGAAGCGAGATGAAATCGTGAACGCCATCGAATCCATGACGGTTATCGGGCGCAGCTCCATCACCACAGACGACTCTCTATCTGCCACGTGGCGGCTCTTGTGGACGACGGAGAAGGAACAGTTGTTCATCATAGAAAAGGCAGGCTTGTTTGGGACGACCGCCGGAGACGTTTTGCAGGTGATCGATGTGAATAAACGGATCCTCAATAACGTCATCACTTTCCCGCCGGACGGGGTTTTCTTCGTACGCTCCGATATCGATATCGCTTCCCCGCAGAGAGTCAATTTCAGGTTCCAAAAACCACTTCTTCTTCGTACGCTCTGATATCGAAATGTGTAGCATCATAGCTTAGTTGATAGCGTTTTTGATATTCAGATTCAATAGTGCGGTATTGAGAGGGAAGAACTGGGAGCTCCCACTGCCACCATTTGGGAAGGGCTGGTGAGTGACTTCTCTCTGTTTCCTCTTCGGAGCTACTTGTATAGATAAAGAGAGTGAGTTTGGGTTTTGGTTCCACAGGTTTGAGAATGTGTATATGGACGGTGAGATCAGAGTGGCCAAGGACATCAGAGGAGACTACTTAATTGTTGATCGTGCTCCTTATAACTGGACTGAATCATTTGTATAATTTGTGATGCTTTTTGCTTCTTGTATAAGTTATACACCATTTCTGTCTCTCTCCTTTATCATTGGGCCTCAAATAGATGATGCAGGAATATAGGGAGGAGGAGGAAGAGGAATTTGAAGGATCATTCAAAGTGTCATCCTTGAGTTTATTTAGGGTTTTTGTCTGTGTTTGTTACAAACACACCACCCACATTTTCTATGC
tc29b04 NC_003075.3 14722 15701 + CTCGGTAAGGCCTTGCCGAGCAATGTTGTTTCCCAGGAGAATCTCGTGGAGGAGTATCTCCGTGAAATCAAATGCGATAACCTTTCTATCAAAGACAAGCTGCAACACTTGTGTAACTTCCCTCTACTTTCTTTGACAACTTTTTTTCTTTGAGCACTTGTGCAAAGATAAGCGTGTTTGTGTGTCTTGGTGATGTTAGGCAAAAGCACAACTGTCAAGACACGCTACACAGTCATGTCACGGGAGACGCTGCACAAATACCCTGAACTAGCAACCGAGGGTTCCCCAACCATCAAACAGAGGCTTGAGATTGCAAACGATGCGGTTGTGCAGATGGCATATGAAGCGAGCTTGGTTTGCATCAAGGAATGGGGAAGGGCAGTGGAAGATATCACTCATCTTGTCTACGTTTCCTCCAGTGAGTTCCGTTTGCCCGGAGGTGATCTTTACCTCTCGGCACAGCTGGGCCTTAGCAACGAGGTTCAGAGAGTGATGCTGTATTTTCTTGGATGCTATGGAGGTTTGAGTGGGCTGCGCGTGGCCAAAGACATTGCTGAGAACAACCCAGGGAGCCGTGTGTTGCTCACCACCTCTGAGACTACCGTTCTGGGGTTCCGCCCACCCAACAAAGCTCGTCCTTACAACTTAGTCGGGGCTGCACTCTTTGGAGATGGAGCAGCTGCCCTGATCATCGGAGCAGACCCTACAGAGTCGGAATCTCCTTTCATGGAGCTTCACTGTGCTATGCAGCAGTTCCTGCCCCAAACACAGGGGGTGATCGACGGGCGGCTGTCAGAAGAGGGCATAACCTTCAAGCTAGGAAGAGACCTCCCTCAGAAGATCGAAGACAACGTGGAGGAGTTCTGCAAGAAGCTAGTGGCAAAGGCTGGCTCTGGTGCGTTGGAGTTGAATGACCTTTTCTGGGCAGTTCATCCTGGTGGACCAGCCATCCTGAGCGGGCTGGAGACAAAGCTGAAGCT
tc29b05 NC_003075.3 15790 16824 + GTCAGAGATGAGCTTGAGAAGAAAGGCACAGAGGGAGAAGAGTGGGGTCTGGGCTTAGCTTTCGGACCGGGAATCACTTTCGAAGGCTTTCTCATGAGGAACCTCTAAATGTATATGAACTGGACATTTCTCAACAAATAAAATATACAGGAACCGATGCTAACACACATACATCATGTAATGGTTGCATTAGTTTTGTTCTTTAATGGTAAATCACAGAAATACATCAATACAGTAAGTTTATATACATAATTGAAGTATTCTTCAATGGCATCTTACTTCATGCATCCAAAAAGTAATTTCAACCTTACATAATTCAGATGTCGTTTTCTCTGGCTTTCAAAGATTCACTCGATTCTAGCAAAGGAACATACGTAACATAGTGTGACACACTAGTCTATATATACATTTTTGCAATATTTTTAACAAATAAATCATAGAGTTGAGACTTATTTACAACTCAATGCTATTGACATTTTATTATTATCAATTAATTAATATTCCTAATTATTAGGATTTCCTTATCTAATATATCTCCATCAATTCTAATTATTTAAAAAAAGAGAAATTTTAGGACATTATTAATATTATACTTTATTAAACCTTACCAATAAAAAATATATACTTTATTAAAGGTAAATATTTTAGTTATTTAAAGTTTATTAAATATTTTCACGGAAAAAACGTTTAGAATATTTATAATATGGAAAATCTATAAAATTAAATAAACATTTGAAAGAAAACTTTTTAATTGATTTAAATTATAAATCTTTTAATAAAGTATTATTAAAACAAAAAATAAAAAATAATGTTTAATTACACCGAACTGGATTAGATGGTATAATGGGTTTAGAATATTATAATATATGAACTTTAGAACAATTAAATAACCATTTGAAAGAAAACTTTTTAATTGATTTTTGAATTATAAATCTTTTAATAAAAGTATTATTAAAACAAAAAATAAAAAATAATATTTAATTTCACCGAACTGGATTAGATGGTATAATGGGTTTAGAATATTGTAATATATGA

Total number of rows: 21761

Table truncated, full table size 23825 Kbytes.




Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp

Supplementary data files not provided
| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap