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Platform GPL6338 Query DataSets for GPL6338
Status Public on Dec 31, 2009
Title TIGR NSF rice oligonucleotide microarray A
Technology type spotted oligonucleotide
Distribution non-commercial
Organism Oryza sativa
Manufacturer The Institute for Genomic Research (TIGR)
Manufacture protocol Oligonucleotides (~60-mer) corresponding to ORF in the Nipponbare genomic sequence were synthesized and printed on amine coated glass slides by TIGR. Microarray slides were purchased through the NSF rice oligonucleotide microarray project (UC Davis).
Catalog number TIGR/UC Davis
Support glass
Coating aminosilane
 
Description About 45,000 oligonucleotides corresponding to ORFs encoded by the Nipponbare genome were printed on two separate glass slides (A and B).
 
Web link http://www.ricearray.org
Contributor(s) Park M, Yun K, Herath V, Mohanty B, Yun S, de los Reyes BG
Submission date Jan 03, 2008
Last update date Dec 31, 2009
Contact name Benildo G de los Reyes
E-mail(s) benildo.de@maine.edu
Phone 207-581-2564
Fax 2-7-581-2537
Organization name University of Maine
Department School of Biology and Ecology
Lab De los Reyes Lab
Street address 5735 Hitchner Hall
City Orono
State/province ME
ZIP/Postal code 04469
Country USA
 
Samples (10) GSM254309, GSM254312, GSM254316, GSM254320, GSM254324, GSM254326 
Series (1)
GSE10062 Oxidative stress transcriptome of japonica rice

Data table header descriptions
ID
Block Block of spotting on the slide
Column Column of the block
Row Row of the block
Name Oligonucleotide identification number
SEQUENCE
Locus Genomic locus number
Annotation Annotation
SPOT_ID

Data table
ID Block Column Row Name SEQUENCE Locus Annotation SPOT_ID
1 1 1 1 TR030072 AGGCCATTGCTCACAGAAGCAATTGAGACTGGCAACGTTGGGGAGCTGATTGACTCCAGGCTGGACA LOC_Os01g02040.1 Transposon protein, putative, CACTA, En/Spm sub-class, expressed TIGR LOC_Os01g02040.1
2 1 2 1 AF354045.1:c9973-8948 AF354045.1:c9973-8948
3 1 3 1 TR031985 CGGCGAGCCATCATGAAGTCCTACGTGGAGTCCTACGTGCTGTCCACGGACTGGAAGGACGTCGGC LOC_Os01g32930.1 SGS domain containing protein, expressed TIGR LOC_Os01g32930.1
4 1 4 1 TR033301 AGCCCAATTGGGATTAGGTGGAAAGAGGCCCAAGACACCAGTCACTTCCACTTTACCCAAGAGGCAACCG LOC_Os01g51850.1 Hypothetical protein TIGR LOC_Os01g51850.1
5 1 5 1 TR034253 AGCTGTATAGCCTTATGGACTGAAGCTTTACCTGAGCTGCGAGGTTCTCTGCGTTTTGGGACCAGCAAT TA41215_4530 AT hook motif-containing protein-like [Oryza sativa (japonica cultivar-group)] TA41215_4530
6 1 6 1 TR035215 AGGTGTCGCAGGTGTTCGAGAAATCGCTGCAGTACGTGAAGCGGTTCAGCCGGTACAAGAACCCGGACG LOC_Os02g02510.1 RNA polymerase Rpb4 family protein, expressed TIGR LOC_Os02g02510.1
7 1 7 1 TR036163 ACAGAAGACCTGCCTGAGTCGGTGGCTAGGAAACTCACGGAAATAGCCTATTCTCGAGGCAGCGC LOC_Os02g15594.1 Protein phosphatase 2C, putative, expressed TIGR LOC_Os02g15594.1
8 1 8 1 TR037484 AGCCTGAGACGCAAGATCTCGTCATAGAGTCACCTCCAGGTGACAATCAACTAATCCATGTTGCCCAG LOC_Os02g37020.1 Expressed protein TIGR LOC_Os02g37020.1
9 1 9 1 TR038432 AGTTCACGTGCATGTGGATATGCTACCTGCTACAGCTTCCCAAGTTCATGGAGC LOC_Os02g49870.1 Expressed protein TIGR LOC_Os02g49870.1
10 1 10 1 TR039394 GGCAGGCACGATCTATTGAAGCTCTGGCCAAAAAGGATTTCGAGAACCTGAGGCAAGCTAGTGAGCCT LOC_Os03g03870.1 Bromodomain containing protein, expressed TIGR LOC_Os03g03870.1
11 1 11 1 TR040345 GCGATCGGCCTATGGAACAGATGACAAAGGCCACCCTAAAATGCCTTCCGAGAAAGGACTGTCCCAGT LOC_Os03g15830.1 Hypothetical protein TIGR LOC_Os03g15830.1
12 1 12 1 TR041662 ACCGCAATGTTCGATCGCAGGCATTCTTGGTCGGAGACATGGTTTTGAGGAAGA LOC_Os03g36480.1 Retrotransposon protein, putative, Ty3-gypsy subclass TIGR LOC_Os03g36480.1
13 1 13 1 TR042613 AGGATCTTCCCAGGTACATTGAGTCTGACTCAGATTGTAGCATGTTGCCC TA34923_4530 Beta-glucosidase [Oryza sativa (japonica cultivar-group)] TA34923_4530
14 1 14 1 TR043575 TCGCAGCATTCCTTGAATCGCCCGATTCCAAGGTAAGGGATCTTGCAAAAGCTGAGCTGC LOC_Os03g61560.1 Expressed protein TIGR LOC_Os03g61560.1
15 1 15 1 TR044524 CTCTCCCAGAGGGCTTTCACTCCAAAATGGACTCTGCCAGAAGTAGATTTTATTGGCAAGTACATGATGG LOC_Os04g14400.1 Retrotransposon protein, putative, unclassified TIGR LOC_Os04g14400.1
16 1 16 1 TR045842 CCGGCCGGCTATTAGACCGGAGTGGCTGAGCTATAGCTGCCTAGCTTTGATGCAGCGATGATTGCTTGCT LOC_Os04g38450.1 Gamma-glutamyltranspeptidase family protein, expressed TIGR LOC_Os04g38450.1
17 1 17 1 TR046790 GCCACCCTGTCCCACGTCACGCTCTTCTATGGAACGGAGATGTATCGCAGGTTCCGGCAGGC LOC_Os04g50820.1 Oligopeptide transporter 4, putative, expressed TIGR LOC_Os04g50820.1
18 1 18 1 TR047753 ACCGATGGTGGCATTTCGGAGGAGGCAAAACAGGATTGTGATTGCGGCGG LOC_Os07g04450.1 Expressed protein TIGR LOC_Os07g04450.1
19 1 19 1 TR048703 AGCCTACCACCTTGTTATATGAATGCCATTTGTAACTGTTGCAACTCTATCTTCAACTGGAGGGATTGT LOC_Os07g19470.3 Uncharacterized ACR, YggU family COG1872 containing protein, expressed TIGR LOC_Os07g19470.3
20 1 20 1 TR050021 TGGCAGTTCTTCAAAAGGTCCAAAACTTCTGAACTGTGTTGTTCGCTCCCCA LOC_Os07g41730.1 Protein bem46, putative, expressed TIGR LOC_Os07g41730.1

Total number of rows: 23232

Table truncated, full table size 3582 Kbytes.




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