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Status
Public on Mar 03, 2008
Title
[RaEx-1_0-st] Affymetrix Rat Exon 1.0 ST Array [transcript (gene) version]
Technology type
in situ oligonucleotide
Distribution
commercial
Organism
Rattus norvegicus
Manufacturer
Affymetrix
Manufacture protocol
See manufacturer's web site
Description
Affymetrix submissions are typically submitted to GEO using the GEOarchive method described at http://www.ncbi.nlm.nih.gov/projects/geo/info/geo_affy.html #%create_date=Mon Mar 16 20:01:52 2009 PDT #%chip_type=RaEx-1_0-st-v1 #%lib_set_name=RaEx-1_0-st #%lib_set_version=v1 #%genome-species=Rattus norvegicus #%genome-version=rn4 #%genome-version-ucsc=rn4 #%genome-version-ncbi=HGSC v3.4 #%genome-version-create_date=2004-11 #%netaffx-annotation-date=2009-03-16 #%netaffx-annotation-netaffx-build=28
Web link
http://www.affymetrix.com/support/technical/byproduct.affx?product=raexon-st http://www.affymetrix.com/analysis/index.affx
Submission date
Mar 03, 2008
Last update date
Jun 03, 2009
Organization
Affymetrix, Inc.
E-mail(s)
geo@ncbi.nlm.nih.gov, support@affymetrix.com
Phone
888-362-2447
URL
http://www.affymetrix.com/index.affx
Street address
City
Santa Clara
State/province
CA
ZIP/Postal code
95051
Country
USA
Samples (205)
GSM318214 , GSM318215 , GSM318216 , GSM318217 , GSM318218 , GSM318219
GSM318220 ,
GSM318221 ,
GSM318222 ,
GSM318223 ,
GSM318224 ,
GSM318225 ,
GSM318226 ,
GSM318227 ,
GSM318228 ,
GSM318229 ,
GSM318230 ,
GSM318231 ,
GSM318232 ,
GSM318233 ,
GSM318234 ,
GSM318235 ,
GSM318236 ,
GSM318237 ,
GSM318238 ,
GSM318239 ,
GSM318240 ,
GSM318241 ,
GSM318242 ,
GSM318243 ,
GSM318244 ,
GSM318245 ,
GSM318246 ,
GSM318247 ,
GSM318248 ,
GSM318249 ,
GSM318250 ,
GSM318251 ,
GSM318252 ,
GSM318253 ,
GSM318254 ,
GSM318255 ,
GSM318256 ,
GSM318257 ,
GSM318258 ,
GSM318259 ,
GSM318260 ,
GSM318261 ,
GSM475314 ,
GSM475315 ,
GSM475316 ,
GSM475317 ,
GSM475318 ,
GSM475319 ,
GSM475320 ,
GSM475321 ,
GSM475322 ,
GSM475323 ,
GSM475324 ,
GSM475325 ,
GSM475326 ,
GSM475327 ,
GSM475328 ,
GSM475329 ,
GSM475330 ,
GSM475331 ,
GSM475332 ,
GSM475333 ,
GSM475334 ,
GSM475335 ,
GSM475336 ,
GSM475337 ,
GSM475338 ,
GSM475339 ,
GSM475340 ,
GSM475341 ,
GSM475342 ,
GSM475343 ,
GSM475344 ,
GSM475345 ,
GSM657865 ,
GSM657866 ,
GSM657867 ,
GSM657868 ,
GSM657869 ,
GSM657870 ,
GSM657871 ,
GSM657872 ,
GSM657873 ,
GSM657874 ,
GSM657875 ,
GSM657876 ,
GSM657877 ,
GSM657878 ,
GSM657879 ,
GSM657880 ,
GSM657881 ,
GSM657882 ,
GSM830478 ,
GSM830479 ,
GSM830480 ,
GSM830481 ,
GSM830482 ,
GSM947641 ,
GSM947642 ,
GSM947643 ,
GSM947644 ,
GSM947645 ,
GSM947646 ,
GSM947647 ,
GSM947648 ,
GSM947649 ,
GSM947650 ,
GSM947651 ,
GSM947652 ,
GSM947653 ,
GSM947654 ,
GSM947655 ,
GSM947656 ,
GSM950783 ,
GSM950784 ,
GSM950785 ,
GSM950786 ,
GSM950787 ,
GSM950788 ,
GSM950789 ,
GSM950790 ,
GSM950791 ,
GSM950792 ,
GSM950793 ,
GSM950794 ,
GSM956412 ,
GSM956413 ,
GSM956414 ,
GSM956415 ,
GSM956416 ,
GSM956417 ,
GSM956418 ,
GSM956419 ,
GSM1017086 ,
GSM1017087 ,
GSM1017089 ,
GSM1017090 ,
GSM1017091 ,
GSM1017092 ,
GSM1017093 ,
GSM1017094 ,
GSM1017095 ,
GSM1017097 ,
GSM1017098 ,
GSM1017099 ,
GSM1017100 ,
GSM1017101 ,
GSM1017102 ,
GSM1017103 ,
GSM1017104 ,
GSM1017105 ,
GSM1017106 ,
GSM1017107 ,
GSM1017108 ,
GSM1017109 ,
GSM1017110 ,
GSM1017111 ,
GSM1017112 ,
GSM1017113 ,
GSM1017114 ,
GSM1017115 ,
GSM1017116 ,
GSM1017117 ,
GSM1017118 ,
GSM1017119 ,
GSM1017120 ,
GSM1017121 ,
GSM1017122 ,
GSM1017123 ,
GSM1017124 ,
GSM1017125 ,
GSM1017127 ,
GSM1017128 ,
GSM1220828 ,
GSM1220829 ,
GSM1220830 ,
GSM1220831 ,
GSM1258018 ,
GSM1258019 ,
GSM1258020 ,
GSM1258021 ,
GSM1258022 ,
GSM1258023 ,
GSM1258024 ,
GSM1258025 ,
GSM1258026 ,
GSM1258027 ,
GSM1258028 ,
GSM1258029 ,
GSM1300259 ,
GSM1300260 ,
GSM1300261 ,
GSM1300262 ,
GSM1300263 ,
GSM1300264 ,
GSM3516849 ,
GSM3516850 ,
GSM3516851 ,
GSM3516852
Series (16)
GSE12670
Renal gene expression analysis: transcript-level data
GSE12672
Renal gene expression analysis of rat malignant hypertensive end-organ damage
GSE19175
Differential gene expression in lactating rats compared against age matched virgin controls
GSE26716
Analysis of gene expression in QKI knockdown CG-4 cells
GSE33597
CD36-DEFICIENT CONGENIC STRAINS SHOW IMPROVED GLUCOSE TOLERANCE AND DISTINCT SHIFTS IN METABOLIC AND TRANSCRIPTOMIC PROFILES
GSE38695
Exacerbated oxidative stress in the fasting liver according to fuel partitioning
GSE38859
Expression data from pain model: rat L5 sensory ganglia after local inflammation
GSE39119
Gene Expression Changes in the Spinal Cords of Lewis Rats with Myelin Basic Protein-Induced Experimental Autoimmune Encephalomyelitis (EAE)
GSE41409
Sense and antisense exon profiling across human, mouse, and rat
GSE41462
Antisense exon profiling across human, mouse, and rat
GSE41464
Sense exon profiling across human, mouse, and rat
GSE50533
Aldosterone regulated genes in distal colon surface cells
GSE52054
Expression data from rat livers - Naproxen and NO-Naproxen treatment
GSE53764
Whole genome transcription profiling of the L5 spinal nerve transection model of neuropathic pain in the rat, at different sequencing depths (Affymetrix transcript-level)
GSE53861
Whole genome transcription profiling of the L5 spinal nerve transection model of neuropathic pain in the rat, at different sequencing depths
GSE123915
Rat Schwann cell gene expression analysis after Sox2 overexpression
Relations
Affiliated with
GPL6194
Data table header descriptions
ID
transcript_cluster_id
GB_LIST
GenBank and RefSeq Accessions from mrna_assignment column
SPOT_ID
genomic location of the transcript cluster in the version of the genome assembly used at annotation time. Coordinates are standard 1-based (length=stop-start+1).
seqname
chromosome number
RANGE_GB
NCBI RefSeq for chromosome of current build
RANGE_STRAND
strand (+|-)
RANGE_START
start (integer). Coordinates are standard 1-based (length=stop-start+1).
RANGE_STOP
stop (integer). Coordinates are standard 1-based (length=stop-start+1).
total_probes
Total number of probes contained by this transcript cluster
gene_assignment
Gene information for each assigned mRNA for mRNAs that corresponds to known genes
mrna_assignment
Description of the public mRNAs that should be detected by the sets within this transcript cluster based on sequence alignment
category
Array design category of the transcript cluster
Data table
ID
GB_LIST
SPOT_ID
seqname
RANGE_GB
RANGE_STRAND
RANGE_START
RANGE_STOP
total_probes
gene_assignment
mrna_assignment
category
7024575
NM_001099462
chr1:5526-17480
chr1
NC_005100.2
+
5526
17480
47
NM_001099462 // Vom2r5 // vomeronasal 2 receptor, 5 // 1p13 // 679691 /// ENSRNOT00000046204 // Vom2r2 // vomeronasal 2 receptor, 2 // 1p13 // 292438
NM_001099462 // RefSeq // Rattus norvegicus vomeronasal 2 receptor, 5 (Vom2r5), mRNA. // chr1 // 100 // 9 // 4 // 4 // 0 /// ENSRNOT00000046204 // ENSEMBL // vomeronasal 2 receptor 2 gene:ENSRNOG00000023718 // chr1 // 100 // 9 // 4 // 4 // 0 /// ENSRNOT00000044270 // ENSEMBL // cdna:known chromosome:RGSC3.4:1:5473:16844:1 gene:ENSRNOG00000021490 // chr1 // 100 // 72 // 34 // 34 // 0 /// ENSRNOT00000049921 // ENSEMBL // cdna:known chromosome:RGSC3.4:1:5526:16968:1 gene:ENSRNOG00000021490 // chr1 // 100 // 72 // 34 // 34 // 0 /// ENSRNOT00000044505 // ENSEMBL // cdna:known chromosome:RGSC3.4:1:8268:16850:1 gene:ENSRNOG00000021490 // chr1 // 100 // 64 // 30 // 30 // 0
main
7024576
chr1:77595-155820
chr1
NC_005100.2
+
77595
155820
68
---
ENSRNOT00000044270 // ENSEMBL // cdna:known chromosome:RGSC3.4:1:5473:16844:1 gene:ENSRNOG00000021490 // chr1 // 100 // 12 // 8 // 8 // 0 /// ENSRNOT00000049921 // ENSEMBL // cdna:known chromosome:RGSC3.4:1:5526:16968:1 gene:ENSRNOG00000021490 // chr1 // 100 // 12 // 8 // 8 // 0
main
7024577
chr1:123829-124007
chr1
NC_005100.2
+
123829
124007
4
---
---
main
7024578
chr1:188050-193243
chr1
NC_005100.2
+
188050
193243
9
---
---
main
7024579
chr1:200688-200725
chr1
NC_005100.2
+
200688
200725
2
---
---
main
7024580
chr1:209209-209370
chr1
NC_005100.2
+
209209
209370
8
---
---
main
7024581
chr1:212472-212593
chr1
NC_005100.2
+
212472
212593
4
---
---
main
7024582
chr1:212740-212805
chr1
NC_005100.2
+
212740
212805
4
---
---
main
7024583
NM_001099654
chr1:212902-315423
chr1
NC_005100.2
+
212902
315423
32
NM_001099654 // Vom2r65 // vomeronasal 2 receptor, 65 // 14p22 // 689403
NM_001099654 // RefSeq // Rattus norvegicus vomeronasal 2 receptor, 65 (Vom2r65), mRNA. // chr1 // 100 // 13 // 4 // 4 // 0
main
7024584
chr1:297344-297566
chr1
NC_005100.2
+
297344
297566
4
---
---
main
7024585
chr1:297578-298190
chr1
NC_005100.2
+
297578
298190
4
---
---
main
7024586
chr1:298191-298244
chr1
NC_005100.2
+
298191
298244
1
---
---
main
7024587
NM_001099461
chr1:298245-761491
chr1
NC_005100.2
+
298245
761491
80
NM_001099461 // Vom2r1 // vomeronasal 2 receptor, 1 // 1p13 // 678740 /// ENSRNOT00000044213 // Vom2r3 // vomeronasal 2 receptor, 3 // 1p13 // 502213 /// ENSRNOT00000041455 // Vom2r1 // vomeronasal 2 receptor, 1 // 1p13 // 678740 /// ENSRNOT00000046204 // Vom2r2 // vomeronasal 2 receptor, 2 // 1p13 // 292438
NM_001099461 // RefSeq // Rattus norvegicus vomeronasal 2 receptor, 1 (Vom2r1), mRNA. // chr1 // 100 // 3 // 3 // 2 // 0 /// ENSRNOT00000044213 // ENSEMBL // vomeronasal 2 receptor 3 gene:ENSRNOG00000040335 // chr1 // 75 // 5 // 3 // 4 // 0 /// ENSRNOT00000041455 // ENSEMBL // vomeronasal 2 receptor 1 gene:ENSRNOG00000032583 // chr1 // 100 // 3 // 3 // 2 // 0 /// ENSRNOT00000046204 // ENSEMBL // vomeronasal 2 receptor 2 gene:ENSRNOG00000023718 // chr1 // 100 // 3 // 3 // 2 // 0
main
7024588
chr1:298572-298945
chr1
NC_005100.2
+
298572
298945
4
---
---
main
7024589
chr1:303238-303282
chr1
NC_005100.2
+
303238
303282
4
---
---
main
7024590
chr1:303283-303314
chr1
NC_005100.2
+
303283
303314
4
---
---
main
7024591
chr1:303315-303509
chr1
NC_005100.2
+
303315
303509
4
---
---
main
7024592
chr1:311499-311643
chr1
NC_005100.2
+
311499
311643
4
---
ENSRNOT00000050719 // ENSEMBL // cdna:known chromosome:RGSC3.4:1:951015:972300:-1 gene:ENSRNOG00000029249 // chr1 // 100 // 100 // 4 // 4 // 0 /// ENSRNOT00000043301 // ENSEMBL // cdna:known chromosome:RGSC3.4:1:951015:972441:-1 gene:ENSRNOG00000029249 // chr1 // 100 // 100 // 4 // 4 // 0
main
7024593
chr1:392255-435408
chr1
NC_005100.2
+
392255
435408
46
---
ENSRNOT00000041173 // ENSEMBL // cdna:novel chromosome:RGSC3.4:9:112742951:112743333:1 gene:ENSRNOG00000029305 // chr1 // 100 // 7 // 3 // 3 // 0 /// ENSRNOT00000048288 // ENSEMBL // cdna:novel chromosome:RGSC3.4:9:112858222:112861105:1 gene:ENSRNOG00000031291 // chr1 // 25 // 17 // 2 // 8 // 1
main
7024594
chr1:399606-399684
chr1
NC_005100.2
+
399606
399684
4
---
---
main
Total number of rows: 361289 Table truncated, full table size 73234 Kbytes .
Supplementary data files not provided