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Platform GPL7671 Query DataSets for GPL7671
Status Public on Mar 13, 2009
Title Bovine oviduct and endometrium (BOE) 1.7K cDNA array version 1.2
Technology type spotted DNA/cDNA
Distribution non-commercial
Organism Bos taurus
Manufacturer Laboratory for Functional Genome Analysis (LAFUGA) - Genomics Unit, Gene Center of the LMU Munich, Munich, Germany
Manufacture protocol Fifteen microliters of PCR reactions of amplified cDNA clones were transferred to 384 well microtiter plates (AbGene, Epsom, Surrey, UK) containing 15 µl of 2 x spotting buffer (40 mmol/l Tris-HCl pH 8, 2 M NaCl, 2 mmol/l EDTA, and bromphenol blue). PCR products were spotted onto amphoterous nylon membranes (Nytran plus, Schleicher & Schuell, Dassel, Germany) within an area of 2 x 5 cm. For spotting an Omnigrid Accent microarrayer (GeneMachines, San Carlos, CA) was used with solid pins (0.015 inches in diameter, SSP015; Telechem International; Sunnyvale, CA). Spotting was performed 6 times for each PCR product on the same position for sufficient and equal application. Twenty-eight arrays were produced simultaneously. The spotted DNA was denatured with 0.5 N NaOH for 20 min at room temperature. DNA was immobilized by baking for 30 min at 80 °C and UV crosslinking (120 mJ/cm2).
Support nylon
 
 
Submission date Nov 19, 2008
Last update date Mar 13, 2009
Contact name Stefan Michael Bauersachs
E-mail(s) stefan.bauersachs@uzh.ch
Organization name University of Zurich
Department Department for Farm Animals
Lab Genetics and Functional Genomics
Street address Eschikon 27 EHB 23.1
City Lindau
State/province Zurich
ZIP/Postal code 8315
Country Switzerland
 
Samples (19) GSM343698, GSM343699, GSM343700, GSM343701, GSM343702, GSM343703 
Series (1)
GSE13663 Bovine endometrium at day 18 of pregnancy after transfer of in vitro produced or somatic cell nuclear transfer embryos

Data table header descriptions
ID
cDNA Internal cDNA clone ID
POSITION Position on the array (row_column)
GENE SYMBOL Official Entrez Gene Gene Symbol of the bovine gene or of the human ortholog or both if different
GENE NAME Official Entrez Gene Full Name
GB ACC GenBank accession number of best Blast hit
Bta GENE ID Bos taurus Entrez Gene ID
Hsa GENE ID Entrez Gene ID of the putative human ortholog
ACC_NO_EST Accession number of cDNA sequence in GenBank est division
SEQUENCE cDNA sequence (EST)
COMMENT df: cDNA clone consists of two artificially ligated cDNA fragments of two different cDNAs (derived from different mRNAs) or represents two cDNA clones, respectively
GB_ACC
ORF
SPOT_ID

Data table
ID cDNA POSITION GENE SYMBOL GENE NAME GB ACC Bta GENE ID Hsa GENE ID ACC_NO_EST SEQUENCE COMMENT GB_ACC ORF SPOT_ID
1 BOE-02-A12 1_1 PARP12 poly (ADP-ribose) polymerase family, member 12 NM_022750 513185 64761 EB086661 ACTCCCACCACTATAGCAAAACCGACAGCAACACCCACACCATGTTCTTGGCTCGGGTGCTGGTGGGCGAGTTCGTCCGAGGCAGCACCGCCTACGTCCGCCCCCCGATCAAGGAGGCCCAAGGCAACATCCTG EB086661 513185
2 BOE-02-C12 1_2 RTP4 receptor transporter protein 4 CB452368 532442 64108 EB086674 ACGTTTGGATGGGTCCCATGACAAGGCCAACTGTGAAGCATGTGTTCTGGGCTACTGTGGACCGAACTTAGAAAACGGCATGACAGGGCCAGAAAAATCCTCTCTCTCCTACATGAAGACTGGGAGTTCCTCTCCTCACAACGGTGATGAGGGTGGCCAAAACCAATCTAGGAGCCACTCAGCAGCGGGGAGTGGG EB086674 532442
3 BOE-02-E12 1_3 TKDP1 trophoblast Kunitz domain protein 1 NM_205776 404076 EB086686 ACCTGTAGCCACACCGTCGATGATACTTGTAACCACATCTATTACTGAACGCTTCTCAGGTCCCCTTCTATGGCTTGTCTCCACACCTGTATTATCCTCACTGAGTGTTGAGTATTCAATATTGAGTTTTGGGAATTCCTCTAGTGTATGGTTATTGAATTGTATTCTGGAAATCATCACCTGACCTCTAATTGCTTTATTGATTATTTCAGCCAATCCTGTTAGTATACTGGCTCCCTTTGTGACAATCTTGG EB086686 404076
4 BOE-02-G12 1_4 LOC652614 similar to HLA class I histocompatibility antigen, A-11 alpha chain precursor (MHC class I antigen A*11) XM_942149 652614 EB086684 CAGAACCTCCTCAGACCTCCTTCCTCATCATGGGCATCATTGTTGGCCTGGTTCTCCTCGTAGTAGCTCTGGTGGCTGGAGCTGTGATCTGGAGGAAGAAGCGCTCAGGTAGGGAAGGGAGGGAGGGATCTGAGTTTTCTTGTCACAATGGGGTTTCAGTCCGAGGTAGACGTTTACCTGCCTGGTTACTGGAAAG EB086684
5 Blank 1_5 --blank
6 BOE-02-A06 1_6 ARHGDIB Rho GDP dissociation inhibitor (GDI) beta BC102109 327676 397 EB086568 ACTCAGAAGTCAGGCTTGAGAGGCAGAGGCACCCAGGACGGAGACGTGGACCACTGACAGTAAGTTGAGATCCCTTCGGGGTGGGGAAGGCTGCAGGTGAGCACAGACAAACGCAAGAAATTTCTAAACCTGGCTACCGCCTG EB086568 327676
7 BOE-04-A12 1_7 UNC5B unc-5 homolog B (C. elegans) CO886236; AL049370 219699 EB086520 ACCAGGCCTGGAGCACAGAACCAATTGGCTAAAGCCTCCTGGGAGGGCTCAAACTGTCCAGCTTTGTAAGAAAAGCCTGGAAAGGATTTGCTGGCACCATCAATCTGCTTGGGCTACTGTGACTGTGTCTGCAGACTGCCCGCCTCGGGGTGGCATGGAGGTCTCTCGGCTTATTCAGGCCTGAGAGGCAGCCCCACGCAGCCCGAG EB086520
8 BOE-04-C12 1_8 STC1 stanniocalcin 1 NM_003155 338078 6781 EB086525 ACTTAGAGATGTTAGCTTTTTGTTTTTCATTCGATGCAAGAAGATGCAGGCTCCAAGTCTGGTTGGAGAGCCAGGCTCGAGCAATTTGGTAAATGTGTTGGGAAGGAAATTAGACATTGAGGATCAAGACCATAAGACACTAGCTCATGAGAGATCAAGAACTCAAATATGACATTCATATTCGTCCATGGCCAGCACAGATTCATAACACGAATTCCACTGAGCATCTTTATGAGCATTGGTTTAAGACATGCATTTAAATTAAGTTGCTTCTTATCAGCTAACTCTACTGGGGCAACCATTCTAAAGGGCTCCGCATCTTCAAATGACAATGTCTGGGGAGTTATGTGAATGTTTTGTGTTTGAGAGTTGTTGGAGGGGAGCTGGGAAAAGACCGAGTGGAGGGAAGTGATAAAAGAGGCCACTTTCTCCCGAGGAGAGGCATA EB086525 338078
9 BOE-04-E12 1_9 SOX4 SRY (sex determining region Y)-box 4 NM_003107 6659 EB086517 ACTTGGTAGTCGGGGTAGTCAGCCATGTGCTTGAGGCGCAGCCGCTCCGCCTCCCGAATGAAAGGGATCTTGTCGCTATCTTTGAGCAGCTTCCAGCGTTTGCCCAGCCGCTTGGAGATCTCGGCGTTGTGCATGTCGGGTGACTGCTCCATGATCTTGCGCCGCTCGATCTGC EB086517
10 BOE-04-G12 1_10 RARRES1 retinoic acid receptor responder (tazarotene induced) 1 NM_001075430 510102 5918 EB086531 ACCACTGCCAAGAGCGACAGACACCAGAAGAGGCCTCTGGAACTGAAGAAGGATCGGCTGTGGCACTGACGGAGCTTAGTAATTTCTGAAAAGCAAGAAAAACCTGTCTATACCACATTCTAAACAAAATGACTG EB086531 510102
11 Blank 1_11 --blank
12 BOE-04-A06 1_12 SPARC secreted protein, acidic, cysteine-rich [osteonectin] NM_174464 282077 6678 EB086430 ACGAGAGGGACGAGGACAACAACCTCCTGACCGAGAAGCAGAAGCTGCGAGTGAAAAAGATCCACGAGAATGAGAAGCGCCTGGAGGCTGGCGACCATCCTGTGGAACTGCTGGCCCGGGACTTCGAGAAGAACTACAACATG EB086430 282077
13 BOE-02-B12 1_13 NUPR1 nuclear protein 1; p8 protein (candidate of metastasis 1) BG691847 614673 26471 EB086673 ACCTCCtcCGCAAAAGAAAGAAGAAACCGGAGCTCCCCAGGGGTGACGGTGACAATAAACAAAGTGTAGCAGCTGAAAAA EB086673 614673
14 BOE-02-D12 1_14 CAPN6 calpain 6 NM_014289 827 EB086668 ACTGAaGACCCATCTGGGGGCTTGAGCCCCCTCAGGCTTCCCAGGTGGGAAGTGTCACTCCCTGGGGGTGTTTATTtGCCCTCTTGTATTTTTTCAGTCCTTCTACAGAATTTTCTCTGAAATGTTCTTCCCTCCACCTCATCTATCAACATTTTACCCCTCCTTCAAGGCCCAGCATAAAAGCCACATCCTCCATGAAGCCTCTCCCCATCCTCCAACCTCCACCTCCTAGAATATCTCAACGCTTCTGCAAATAATGAATACAATGACATAGTTGTAGCCCTTAGTCTAGTTCAGCACGCAATCATTTAAAAAATTATTTTGTAGATTATTTTTAGCTCACTCTTTCCTACCACGTTTTTCAGTCTATCTTCTCTACTGCCTCCACCACACTGCCTTACATAATCCAAAGCACAATAAAATTGACATTTAATCAAAAA EB086668
15 BOE-02-F12 1_15 DDX58 DEAD (Asp-Glu-Ala-Asp) box polypeptide 58 NM_014314 504760 23586 EB086689 GCAGCAGTTGTATTAGACATTAGAAACATACTGAAACTTTCCATTTTCAACAGAAATACAATGATGCCCTCATTATCAATGAGGATGCACGGATGAAAGATGCTCTGAATTACTTGAAAAACTTCTTCAAAAATGTCCGGGCAGCAGGATTTGATGCAATTGAGCAAGATCTCACTCAGAGATTTGAAGAAAAGCTGTTGGAACTAGAAGGTATTTCCATGGATCCCAGCAATGAGAACGCTAAACTCAAAGATCTCTGCTTCATCTTGCAAGAGGAATACCACTTAAACCCAGAGACCAGAACCATCCTCTTTGTGAAAACCCGAGCACTGGTGGATGCCTTAAAGAACTGGATTGAAGAAAATCCTAAACTCAGCTTTCTAAAACCTGGCATATTGACTGGACGTGGCAGAACAAATCAGACAATGGGAATGACGCTCCCAGCACAGA EB086689 504760
16 Empty 7_15 --empty
17 Blank 1_17 --blank
18 BOE-02-B06 1_18 RNF213 ring finger protein 213 [Homo sapiens] BM431393; BX640932 509283 57674 EB086572 ACCCAGCACACCAGGCCCTGCTTCCTCAGACTACTGCATGCTGAGAGGGACGGAAAATAAGGTTATTAATTTTTGCCTTCTTTTCTAGTTTATTCTGCAGTCACAAAAGAGAAGCTGGCTTTCTTCCTTCTTCCATTCCTTTAAATTCAGAGAATTG EB086572 509283
19 BOE-04-B12 1_19 ACTB actin, beta AY141970 280979 60 EB086524 ACTCCAAAACAAATTTTGTTTTTAATCTTCGCCTTAATACTTGTTTTTTTTGTTTGTTTTATTTTGAATGGACAGCCATCATGGACCCCTTTTTTTGTCCCTCAACTTGAGATGTATGAAGGCTTTTGGTCCCCTTGGGAGCGGGTTGAGGTGCGGAGGCAGTCAGGGCTTTCCTG EB086524 280979
20 BOE-04-D12 1_20 NR2F2 nuclear receptor subfamily 2, group F, member 1 NM_174402 281945 7026 EB086527 AAATATATCCGGATAGGTAGGAGTGGCAGTTGAGGGGGTCCCCGTTGGTCAGCGCGAACTGCCCGTGGCTCGGCTGGGTGGGCGGCATCCTGCCCCTCTGCACGGCTTCCCGTCTCATGCCCACTTTGAGGCACTTTTTGAGGCGGCAG EB086527 281945

Total number of rows: 1728

Table truncated, full table size 543 Kbytes.




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