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Platform GPL5827 Query DataSets for GPL5827
Status Public on Sep 13, 2007
Title Galbraith Laboratory Operon Long Oligonucleotide Microarray version 3.0 (ATq306.03.Z)
Technology type spotted oligonucleotide
Distribution non-commercial
Organism(s) Arabidopsis thaliana
Manufacturer The Galbraith Laboratory, University of Arizona
Manufacture protocol QARRAYMAX24
Support glass
Coating aminosilane
 
Description This oligonucleotide array is produced from the Operon Version 3.0 Array-Ready Oligo set (AROS), which comprises 29,110 70-mer oligonucleotides representing 26,173 protein-coding genes, and 28,964 protein-encoding gene transcripts, and 87 microRNA gene precursors. AROS design is based on ATH1 release 5.0 of the TIGR Arabidopsis genome annotation database, and Release 4.0 of the miRNA Registry at the Sanger Institute. Various additional elements are printed as controls. Microarrays can be ordered from the Galbraith laboratory. This platform represents slides ATq3.06.03.001-ATq3.06.03.400 (http://www.ag.arizona.edu/microarray).
 
Web link http://ag.arizona.edu/microarray
Submission date Sep 10, 2007
Contact name David William Galbraith
E-mail(s) galbraith@arizona.edu
Phone 520-621-9153
URL http://latin.arizona.edu/galbraith
Organization name University of Arizona
Department Plant Sciences and Bio5 Institute
Lab Galbraith
Street address 303 Forbes Building
City Tucson
State/province AZ
ZIP/Postal code 85721
Country USA
 

Data table header descriptions
ID
Oligo ID Assigned by OPERON, or by STRATAGENE or the Galbraith Lab (control elements)
Locus_Name Chromosomal-based gene locus names
SEQUENCE Sequence of spotted oligonucleotides
Description Description of the gene locus
ORF Locus tag
SPOT_ID spot identifier (ie, buffer, blank, controls, etc)

Data table
ID Oligo ID Locus_Name SEQUENCE Description ORF SPOT_ID
1_01_01 A201036_01 At1g75780 CCAAGATGCTACCGCTGATGAAGAAGACGAATATGATGAAGAAGAAGAACAAGTTTACGAATCTTGATCT tubulin beta-1 chain (TUB1) nearly identical to SP|P12411 Tubulin beta-1 chain {Arabidopsis thaliana} At1g75780
1_01_02 atc06 atc06 CAGGAATGCCCCGTCTATAGGGGAACCTGCCTATTGGTGCGTAATTAATCGGCCCTGGGCATCCACCTCG Randomly generated negative control --CONTROL_negative_atc06
1_01_03 A001934_01 At1g17745 AAAGGAGTACAGTCCATTAGGGTGGTCTATCGGTCAGCTCGTGACCGAGATGATTTGGATACTAGACTAC D-3-phosphoglycerate dehydrogenase / 3-PGDH identical to SP|O04130 At1g17745
1_01_04 A020780_01 At2g17190 GAATAGGAACACGGCTGGCCAGGATCCTACGCAAACTGGTGCTGCGACAGGGACAGCCAATAACGGAGGA ubiquitin family protein contains INTERPRO:IPR000626 ubiquitin domain At2g17190
1_01_05 Alien2 Alien2 --CONTROL: Stratagene Spotreport Alien Oligo
1_01_06 Alien8 Alien8 --CONTROL: Stratagene Spotreport Alien Oligo
1_01_07 atc04 atc04 CTGCACGGAAACCGCGGGTTTTGGACGGAGCACGCACGTAGCTCGCGATATACTTACGCCGTTGCCTCCC Randomly generated negative control --CONTROL_negative_atc04
1_01_08 atc10 atc10 CTGATCAGTACGCGCCGCGTTGCTCGTGACTAGATACGTTACCGCGCGCCGAATCTTAAAGTTCAAACTC Randomly generated negative control --CONTROL_negative_atc10
1_01_09 A000489_01 At1g03550 ACTACTAATGCTGCAGTCGGGATAATGTATTTCATTGGTGCTGGGTTCTTCTGCATCGAAACACTTCTCA secretory carrier membrane protein (SCAMP) family protein contains Pfam domain, PF04144: SCAMP family At1g03550
1_01_10 A024634_01 At1g03630 CTTTGGCTGGGAATGTACCGCCAAAGGCAAACCTTGGAGACCTAAGAGGCTTAGCGTCAGGATTGAATGG protochlorophyllide reductase C, chloroplast / PCR C / NADPH-protochlorophyllide oxidoreductase C (PORC) identical to SP:O48741 protochlorophyllide reductase C, chloroplast precursor (EC 1.3.1.33) (PCR C) (NADPH-protochlorophyllide oxidoreductase C) (POR At1g03630
1_01_11 At30000321 At1g03780 AACCTAAGCAATGCACACAACCAGAACCGTTCCAGTTAGAGAGTCTAGTAAGGCACGAAGAGGAAATGCG targeting protein-related similar to microtubule-associated protein / targeting protein for Xklp2 ((TPX2) GI:8926138) {Homo sapiens}; similar to Restricted expression proliferation associated protein 100 (p100) (Differentially expressed in lung cells 2) ( At1g03780
1_01_12 A000429_01 At1g03840 CAGCCGCATTCACCGCAAGAGGATTACAATTGGGTTTTCGGAAACGCGAATAATCACGGCGAGTTAATAA zinc finger (C2H2 type) family protein contains Zinc finger,C2H2 type,domain contains Pfam domain, PF00096: Zinc finger, C2H2 type At1g03840
1_01_13 At30000345 At1g03960 AGGAGCCAAAGCGCCAACTCATTCCTCAGTTCTACTACCAACACGGGCGTCCACCAGCAAAAGAACTAAA calcium-binding EF hand family protein contains Pfam profile: PF00036 EF hand At1g03960
1_01_14 A001796_01 At1g04020 AAAGAGCTTGTTCTCTGTGGATCAGCACTCTCTAAAAGTGATAAGAAACTGATGGAAAGTTTAGCCGTTC zinc finger (C3HC4-type RING finger) family protein / BRCT domain-containing protein contains Pfam domain, PF00533: BRCA1 C Terminus (BRCT) domain At1g04020
1_01_15 A023201_01 At1g04180 AGTCTGCTCGGTTTGATGAAACTAGCGGGCTATGGAGGGTTAGAACAACCTCAGACGGAGAGGAGATGGA flavin-containing monooxygenase family protein / FMO family protein similar to flavin-containing monooxygenases YUCCA [gi:16555352], YUCCA2 [gi:16555354], and YUCCA3 [gi:16555356] from Arabidopsis thaliana; contains Pfam profile PF00743 At1g04180
1_01_16 A024273_01 At1g04240 GGGTTTCTCGGGCAAGATCTATGTTCATTGGATTGAATCCAATTCATAGCCTTTATTTACCTCATCGGTA auxin-responsive protein / indoleacetic acid-induced protein 3 (IAA3) identical to SP|Q38822 Auxin-responsive protein IAA3 (Indoleacetic acid-induced protein 3) {Arabidopsis thaliana}; EST gb|T04296 comes from this gene At1g04240
1_01_17 A001919_01 At1g06900 AATCAGTTGAGGACAAAGGAGCAGCTTGGTTATGTTGTCGAGTGTGGCCCTCGCTTAACGTATCGTGTGC peptidase M16 family protein / insulinase family protein contains Pfam domain, PF05193: Peptidase M16 inactive domain; similar to insulin-degrading enzyme (Insulysin, Insulinase, Insulin protease) [Mouse] SWISS-PROT:Q9JHR7 At1g06900
1_01_18 A003588_01 At1g06960 AACCCGGAATTGCGTTTGTGGAGTATGAAGACGATGTTCAGTCTTCCATGGCCATGCAGGCTCTTCAGGG small nuclear ribonucleoprotein U2B, putative / spliceosomal protein, putative non-consensus splice donor GC at exon 4; similar to spliceosomal protein (U2B) GI:169588 from [Solanum tuberosum] At1g06960
1_01_19 A001564_01 At1g07120 AAAAGATTCTCTGACGCAGGCCTTGCAAAGGATTCAATCGTTGCAAGACAGGTTAGAGGAAAGTGTTAAC expressed protein At1g07120
1_01_20 A200275_01 At1g07170 GTTCGGATCGGCGGCTCGGAGATCAGGGATCGCTAGTTCAGACACCTTCTCTTCTTCTTCGTTCTCCTTC expressed protein contains Pfam domain PF03660: Uncharacterised protein family (UPF0123) At1g07170

Total number of rows: 32448

Table truncated, full table size 6757 Kbytes.




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