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Platform GPL9793 Query DataSets for GPL9793
Status Public on Feb 09, 2010
Title Affymetrix Human Exon 1.0 ST Array [CDF: HuEx-1_0-st-v2,coreR3,A20071112,EP]
Technology type in situ oligonucleotide
Distribution custom-commercial
Organism Homo sapiens
Manufacturer Affymetrix
Manufacture protocol See manufacturer's website.
 
Description Probe set data extracted from custom CDF [HuEx-1_0-st-v2,coreR3,A20071112,EP].

#%chip_type=HuEx-1_0-st-v2
#%lib_set_name=HuEx-1_0-st
#%lib_set_version=v2
#%genome-species=Homo sapiens
#%genome-version-ucsc=hg18
#%genome-version-ncbi=36
#%genome-version-create_date=2006-03
#%netaffx-annotation-date=2008-07-21
#%netaffx-annotation-netaffx-build=26
 
Web link http://www.affymetrix.com/support/technical/byproduct.affx?product=huexon-st
http://www.affymetrix.com/analysis/index.affx
Submission date Dec 11, 2009
Last update date Oct 12, 2018
Contact name Gordon K Smyth
E-mail(s) smyth@wehi.edu.au
Phone (+61 3) 9345 2326
Fax (+61 3) 9347 0852
URL http://www.wehi.edu.au
Organization name Walter and Eliza Hall Institute of Medical Research
Department Bioinformatics
Lab Smyth
Street address 1G Royal Pde
City Parkville
State/province Vic
ZIP/Postal code 3052
Country Australia
 
Samples (58) GSM756911, GSM756912, GSM756913, GSM756914, GSM756915, GSM756916 
Series (4)
GSE30521 Expression data from prostate cancer samples
GSE45717 Expression data from MALD1 and MCL cases
GSE61639 KAP1 promotes proliferation and metastatic progression of breast cancer cells
Relations
Alternative to GPL5175

Data table header descriptions
ID Unique identifier for the transcript cluster
Chromosome Chromosome number
RANGE_GB RefSeq accession.version of chromosome (NCBI Build 36)
RANGE_STRAND Strand (+|-) relative to RANGE_GB
RANGE_START Start coordinate relative to RANGE_GB
RANGE_STOP Stop coordinate relative to RANGE_GB
GB_ACC GenBank and RefSeq Accessions from mrna_assignment column
miRNA_ID microRNA identifier in Sanger miRBase (http://www.mirbase.org)
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
SPOT_ID

Data table
ID Chromosome RANGE_GB RANGE_STRAND RANGE_START RANGE_STOP GB_ACC miRNA_ID total_probes gene_assignment mrna_assignment SPOT_ID
2315100 chr1 NC_000001.9 + 1747 4272 BC005070 20 BC005070 // MGC13005 // hypothetical LOC84771 // 9p24.3 // 84771 /// AK125998 // MGC13005 // hypothetical LOC84771 // 9p24.3 // 84771 /// AK123946 // MGC13005 // hypothetical LOC84771 // 9p24.3 // 84771 BC005070 // GenBank // Homo sapiens hypothetical protein MGC13005, mRNA (cDNA clone MGC:13005 IMAGE:3530747), complete cds. // chr1 // 100 // 35 // 7 // 7 // 0 /// AK125998 // GenBank // Homo sapiens cDNA FLJ44010 fis, clone TESTI4024344. // chr1 // 100 // 80 // 16 // 16 // 0 /// AK123946 // GenBank // Homo sapiens cDNA FLJ41952 fis, clone PROST2018922. // chr1 // 100 // 75 // 15 // 15 // 0 /// BC070227 // GenBank // Homo sapiens similar to DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11 isoform 1, mRNA (cDNA clone IMAGE:6103207). // chr1 // 71 // 35 // 5 // 7 // 0
2315106 chr1 NC_000001.9 + 4623 5061 DQ786314 8 --- DQ786314 // GenBank // Homo sapiens clone HLS_IMAGE_811138 mRNA sequence. // chr1 // 100 // 38 // 3 // 3 // 0
2315113 chr1 NC_000001.9 + 17426 17676 DQ786265 4 --- DQ786265 // GenBank // Homo sapiens clone HLS_IMAGE_298685 mRNA sequence. // chr1 // 100 // 100 // 4 // 4 // 0
2315117 chr1 NC_000001.9 + 20486 20530 BC048429 4 --- BC048429 // GenBank HTC // Homo sapiens cDNA clone IMAGE:5275617, **** WARNING: chimeric clone ****. // chr1 // 75 // 100 // 3 // 4 // 0
2315125 chr1 NC_000001.9 + 41776 60496 NM_001005240 26 NM_001005240 // OR4F17 // olfactory receptor, family 4, subfamily F, member 17 // 19p13.3 // 81099 /// NM_001004195 // OR4F4 // olfactory receptor, family 4, subfamily F, member 4 // 15q26.3 // 26682 /// NM_001005484 // OR4F5 // olfactory receptor, family 4, subfamily F, member 5 // 1p36.33 // 79501 /// ENST00000318050 // OR4F17 // olfactory receptor, family 4, subfamily F, member 17 // 19p13.3 // 81099 /// ENST00000335137 // OR4F4 // olfactory receptor, family 4, subfamily F, member 4 // 15q26.3 // 26682 /// ENST00000326183 // OR4F5 // olfactory receptor, family 4, subfamily F, member 5 // 1p36.33 // 79501 /// AY972817 // OR4F4 // olfactory receptor, family 4, subfamily F, member 4 // 15q26.3 // 26682 NM_001005240 // RefSeq // Homo sapiens olfactory receptor, family 4, subfamily F, member 17 (OR4F17), mRNA. // chr1 // 100 // 58 // 15 // 15 // 0 /// NM_001004195 // RefSeq // Homo sapiens olfactory receptor, family 4, subfamily F, member 4 (OR4F4), mRNA. // chr1 // 100 // 58 // 15 // 15 // 0 /// NM_001005484 // RefSeq // Homo sapiens olfactory receptor, family 4, subfamily F, member 5 (OR4F5), mRNA. // chr1 // 100 // 58 // 15 // 15 // 0 /// ENST00000318050 // ENSEMBL Transcript // Olfactory receptor 4F17 gene:ENSG00000176695 // chr1 // 100 // 58 // 15 // 15 // 0 /// ENST00000335137 // ENSEMBL Transcript // Olfactory receptor 4F4 gene:ENSG00000186092 // chr1 // 100 // 58 // 15 // 15 // 0 /// ENST00000326183 // ENSEMBL Transcript // Olfactory receptor 4F5 gene:ENSG00000177693 // chr1 // 100 // 58 // 15 // 15 // 0 /// AY972817 // GenBank // Homo sapiens OR4F17 isoform 2 mRNA, partial cds, alternatively spliced. // chr1 // 100 // 46 // 12 // 12 // 0
2315129 chr1 NC_000001.9 + 42315 53750 20 --- ENST00000379479 // ENSEMBL Transcript // cdna:known chromosome:NCBI36:1:52878:53750:1 gene:ENSG00000205292 // chr1 // 100 // 40 // 8 // 8 // 0
2315145 chr1 NC_000001.9 + 104923 105917 BC028185 4 --- BC028185 // GenBank // Homo sapiens cDNA clone IMAGE:4422069, partial cds. // chr1 // 100 // 100 // 4 // 4 // 0
2315147 chr1 NC_000001.9 + 121021 136594 XM_001713972 44 XM_001713972 // LOC100132561 // similar to hCG2014367 // 11p15.5 // 100132561 /// XR_037798 // LOC100132630 // similar to capicua homolog // 1p36.33 // 100132630 /// XR_038367 // LOC100132769 // similar to hCG2014367 // 7p22.3 // 100132769 /// XM_001720943 // LOC100130600 // similar to hCG2014367 // 7q32.1 // 100130600 /// XR_038424 // LOC100130483 // hypothetical LOC100130483 // 1q41 // 100130483 /// XR_042338 // LOC728615 // similar to hCG1739111 // 1q41 // 728615 /// XR_042510 // LOC100131243 // hypothetical LOC100131243 // --- // 100131243 /// XR_036857 // LOC100130852 // similar to hCG2014367 // --- // 100130852 /// XR_038002 // LOC100130852 // similar to hCG2014367 // --- // 100130852 XM_001713972 // RefSeq // PREDICTED: Homo sapiens similar to hCG2014367 (LOC100132561), mRNA. // chr1 // 86 // 64 // 24 // 28 // 0 /// XR_037798 // RefSeq // PREDICTED: Homo sapiens misc_RNA (LOC100132630), miscRNA. // chr1 // 94 // 36 // 15 // 16 // 0 /// XR_038367 // RefSeq // PREDICTED: Homo sapiens misc_RNA (LOC100132769), miscRNA. // chr1 // 100 // 25 // 11 // 11 // 0 /// XM_001720943 // RefSeq // PREDICTED: Homo sapiens similar to hCG2014367 (LOC100130600), mRNA. // chr1 // 100 // 23 // 10 // 10 // 0 /// XR_038424 // RefSeq // PREDICTED: Homo sapiens misc_RNA (LOC100130483), miscRNA. // chr1 // 75 // 9 // 3 // 4 // 0 /// XR_042338 // RefSeq // PREDICTED: Homo sapiens misc_RNA (LOC728615), miscRNA. // chr1 // 75 // 9 // 3 // 4 // 0 /// XR_042510 // RefSeq // PREDICTED: Homo sapiens misc_RNA (LOC100131243), miscRNA. // chr1 // 60 // 23 // 6 // 10 // 0 /// XR_036857 // RefSeq // PREDICTED: Homo sapiens misc_RNA (LOC100130852), miscRNA. // chr1 // 50 // 18 // 4 // 8 // 0 /// XR_038002 // RefSeq // PREDICTED: Homo sapiens misc_RNA (LOC100130852), partial miscRNA. // chr1 // 50 // 18 // 4 // 8 // 0 /// GENSCAN00000046165 // ENSEMBL Prediction // cdna:Genscan chromosome:NCBI36:1:121021:124696:1 // chr1 // 100 // 64 // 28 // 28 // 0 /// GENSCAN00000051665 // ENSEMBL Prediction // cdna:Genscan chromosome:NCBI36:7:56534:60245:1 // chr1 // 100 // 64 // 28 // 28 // 0 /// GENSCAN00000025850 // ENSEMBL Prediction // cdna:Genscan chromosome:NCBI36:1:318384:322055:-1 // chr1 // 100 // 55 // 24 // 24 // 0 /// GENSCAN00000014398 // ENSEMBL Prediction // cdna:Genscan chromosome:NCBI36:5:180687742:180691447:-1 // chr1 // 100 // 55 // 24 // 24 // 0 /// GENSCAN00000032344 // ENSEMBL Prediction // cdna:Genscan chromosome:NCBI36:19:144288:147965:1 // chr1 // 100 // 45 // 20 // 20 // 0 /// GENSCAN00000062061 // ENSEMBL Prediction // cdna:Genscan chromosome:NCBI36:3:199433847:199437562:-1 // chr1 // 100 // 45 // 20 // 20 // 0 /// GENSCAN00000029848 // ENSEMBL Prediction // cdna:Genscan chromosome:NCBI36:11:79189:117047:1 // chr1 // 79 // 55 // 19 // 24 // 0 /// GENSCAN00000059000 // ENSEMBL Prediction // cdna:Genscan chromosome:NCBI36:1:641123:651062:1 // chr1 // 100 // 36 // 16 // 16 // 0 /// GENSCAN00000061022 // ENSEMBL Prediction // cdna:Genscan chromosome:NCBI36:16:88766016:88769691:-1 // chr1 // 75 // 45 // 15 // 20 // 0 /// GENSCAN00000048930 // ENSEMBL Prediction // cdna:Genscan chromosome:NCBI36:1:241279752:241283408:1 // chr1 // 86 // 32 // 12 // 14 // 0 /// GENSCAN00000028268 // ENSEMBL Prediction // cdna:Genscan chromosome:NCBI36:1:222176500:222228272:1 // chr1 // 90 // 23 // 9 // 10 // 0 /// GENSCAN00000059343 // ENSEMBL Prediction // cdna:Genscan chromosome:NCBI36:4:119774015:119801267:-1 // chr1 // 60 // 23 // 6 // 10 // 0 /// GENSCAN00000047802 // ENSEMBL Prediction // cdna:Genscan chromosome:NCBI36:6:59339:90991:1 // chr1 // 75 // 18 // 6 // 8 // 0
2315160 chr1 NC_000001.9 + 126105 126420 XR_038367 8 XR_038367 // LOC100132769 // similar to hCG2014367 // 7p22.3 // 100132769 XR_038367 // RefSeq // PREDICTED: Homo sapiens misc_RNA (LOC100132769), miscRNA. // chr1 // 100 // 88 // 8 // 7 // 0
2315163 chr1 NC_000001.9 + 128303 652213 BC118988 85 BC118988 // C20orf69 // chromosome 20 open reading frame 69 // --- // 140849 /// BC131589 // tcag7.907 // hypothetical LOC402483 // 7q32.1 // 402483 /// BC062355 // tcag7.907 // hypothetical LOC402483 // 7q32.1 // 402483 /// ENST00000279067 // C20orf69 // chromosome 20 open reading frame 69 // --- // 140849 BC118988 // GenBank // Homo sapiens chromosome 20 open reading frame 69, mRNA (cDNA clone MGC:141807 IMAGE:40035995), complete cds. // chr1 // 100 // 7 // 6 // 6 // 0 /// BC131589 // GenBank // Homo sapiens cDNA clone IMAGE:40113329. // chr1 // 58 // 14 // 7 // 12 // 0 /// BC062355 // GenBank // Homo sapiens hypothetical gene supported by AK127273, mRNA (cDNA clone IMAGE:4581714). // chr1 // 80 // 12 // 8 // 10 // 0 /// ENST00000279067 // ENSEMBL Transcript // Putative uncharacterized protein C20orf69 gene:ENSG00000149656 // chr1 // 100 // 7 // 6 // 6 // 0 /// ENST00000307499 // ENSEMBL Transcript // cdna:known chromosome:NCBI36:6:76910:89885:-1 gene:ENSG00000170590 // chr1 // 100 // 7 // 6 // 6 // 0 /// BC092421 // GenBank // Homo sapiens cDNA clone IMAGE:30378758. // chr1 // 100 // 16 // 14 // 14 // 0 /// BC146650 // GenBank // Homo sapiens cDNA clone IMAGE:40147176. // chr1 // 67 // 7 // 4 // 6 // 0
2315198 chr1 NC_000001.9 + 137904 672580 XR_038367 20 XR_038367 // LOC100132769 // similar to hCG2014367 // 7p22.3 // 100132769 /// XM_001720943 // LOC100130600 // similar to hCG2014367 // 7q32.1 // 100130600 XR_038367 // RefSeq // PREDICTED: Homo sapiens misc_RNA (LOC100132769), miscRNA. // chr1 // 75 // 20 // 3 // 4 // 0 /// XM_001720943 // RefSeq // PREDICTED: Homo sapiens similar to hCG2014367 (LOC100130600), mRNA. // chr1 // 75 // 20 // 3 // 4 // 0
2315206 chr1 NC_000001.9 + 148013 154584 AK123521 8 --- AK123521 // GenBank // Homo sapiens cDNA FLJ41527 fis, clone BRTHA2014578. // chr1 // 100 // 38 // 3 // 3 // 0
2315209 chr1 NC_000001.9 + 226433 228249 XM_001132428 8 XM_001132428 // LOC728836 // hypothetical LOC728836 // 8p23.3 // 728836 /// XM_001715357 // LOC100132550 // hypothetical protein LOC100132550 // 6q27 // 100132550 XM_001132428 // RefSeq // PREDICTED: Homo sapiens hypothetical LOC728836 (LOC728836), mRNA. // chr1 // 100 // 50 // 4 // 4 // 0 /// XM_001715357 // RefSeq // PREDICTED: Homo sapiens hypothetical protein LOC100132550 (LOC100132550), mRNA. // chr1 // 100 // 50 // 4 // 4 // 0
2315218 chr1 NC_000001.9 + 307694 319131 BC092421 12 --- BC092421 // GenBank // Homo sapiens cDNA clone IMAGE:30378758. // chr1 // 100 // 33 // 4 // 4 // 0
2315224 chr1 NC_000001.9 + 317187 557999 32 ENST00000361624 // COX1 // cytochrome c oxidase I // --- // 4512 /// ENST00000391564 // COX1 // cytochrome c oxidase I // --- // 4512 /// ENST00000382718 // FLJ45445 // hypothetical LOC399844 // 19p13.3 // 399844 ENST00000361624 // ENSEMBL Transcript // Cytochrome c oxidase subunit I gene:ENSG00000198804 // chr1 // 100 // 50 // 16 // 16 // 0 /// ENST00000391564 // ENSEMBL Transcript // Cytochrome c oxidase subunit I gene:ENSG00000212875 // chr1 // 100 // 50 // 16 // 16 // 0 /// NC_001807 // GenBank // cytochrome c oxidase subunit I, Mitochondrion [Homo sapiens] // chr1 // 100 // 50 // 16 // 16 // 0 /// ENST00000382718 // ENSEMBL Transcript // cDNA FLJ45445 fis, clone BRSSN2013696 gene:ENSG00000206055 // chr1 // 100 // 13 // 4 // 4 // 0 /// AK074742 // GenBank // Homo sapiens cDNA FLJ90261 fis, clone NT2RM4000761. // chr1 // 100 // 50 // 16 // 16 // 0 /// AK124402 // GenBank // Homo sapiens cDNA FLJ42411 fis, clone BLADE2001133. // chr1 // 100 // 13 // 4 // 4 // 0
2315251 chr1 NC_000001.9 + 357510 358460 NM_001005277 8 NM_001005277 // OR4F16 // olfactory receptor, family 4, subfamily F, member 16 // 1p36.33 // 81399 /// NM_001005221 // OR4F29 // olfactory receptor, family 4, subfamily F, member 29 // 1p36.33 // 729759 /// NM_001005224 // OR4F3 // olfactory receptor, family 4, subfamily F, member 3 // 5q35.3 // 26683 /// NM_001005504 // OR4F21 // olfactory receptor, family 4, subfamily F, member 21 // 8p23.3 // 441308 /// ENST00000327169 // OR4F3 // olfactory receptor, family 4, subfamily F, member 3 // 5q35.3 // 26683 /// ENST00000327169 // OR4F29 // olfactory receptor, family 4, subfamily F, member 29 // 1p36.33 // 729759 /// ENST00000327169 // OR4F16 // olfactory receptor, family 4, subfamily F, member 16 // 1p36.33 // 81399 /// ENST00000333864 // OR4F3 // olfactory receptor, family 4, subfamily F, member 3 // 5q35.3 // 26683 /// ENST00000333864 // OR4F29 // olfactory receptor, family 4, subfamily F, member 29 // 1p36.33 // 729759 /// ENST00000333864 // OR4F16 // olfactory receptor, family 4, subfamily F, member 16 // 1p36.33 // 81399 /// ENST00000332831 // OR4F3 // olfactory receptor, family 4, subfamily F, member 3 // 5q35.3 // 26683 /// ENST00000332831 // OR4F29 // olfactory receptor, family 4, subfamily F, member 29 // 1p36.33 // 729759 /// ENST00000332831 // OR4F16 // olfactory receptor, family 4, subfamily F, member 16 // 1p36.33 // 81399 /// ENST00000320901 // OR4F21 // olfactory receptor, family 4, subfamily F, member 21 // 8p23.3 // 441308 NM_001005277 // RefSeq // Homo sapiens olfactory receptor, family 4, subfamily F, member 16 (OR4F16), mRNA. // chr1 // 100 // 100 // 8 // 8 // 0 /// NM_001005221 // RefSeq // Homo sapiens olfactory receptor, family 4, subfamily F, member 29 (OR4F29), mRNA. // chr1 // 100 // 100 // 8 // 8 // 0 /// NM_001005224 // RefSeq // Homo sapiens olfactory receptor, family 4, subfamily F, member 3 (OR4F3), mRNA. // chr1 // 100 // 100 // 8 // 8 // 0 /// NM_001005504 // RefSeq // Homo sapiens olfactory receptor, family 4, subfamily F, member 21 (OR4F21), mRNA. // chr1 // 100 // 50 // 4 // 4 // 0 /// ENST00000327169 // ENSEMBL Transcript // Olfactory receptor 4F3/4F16/4F29 gene:ENSG00000177799 // chr1 // 100 // 100 // 8 // 8 // 0 /// ENST00000333864 // ENSEMBL Transcript // Olfactory receptor 4F3/4F16/4F29 gene:ENSG00000183127 // chr1 // 100 // 100 // 8 // 8 // 0 /// ENST00000332831 // ENSEMBL Transcript // Olfactory receptor 4F3/4F16/4F29 gene:ENSG00000185097 // chr1 // 100 // 100 // 8 // 8 // 0 /// ENST00000320901 // ENSEMBL Transcript // Olfactory receptor 4F21 gene:ENSG00000176269 // chr1 // 100 // 50 // 4 // 4 // 0
2315258 chr1 NC_000001.9 + 407955 408053 4 --- GENSCAN00000053835 // ENSEMBL Prediction // cdna:Genscan chromosome:NCBI36:5:180771166:180782341:1 // chr1 // 100 // 100 // 4 // 4 // 0
2315260 chr1 NC_000001.9 + 410079 453914 BC036251 24 --- BC036251 // GenBank // Homo sapiens cDNA clone IMAGE:5268125. // chr1 // 92 // 50 // 11 // 12 // 0
2315269 chr1 NC_000001.9 + 427580 427675 4 --- GENSCAN00000027902 // ENSEMBL Prediction // cdna:Genscan chromosome:NCBI36:6:170861198:170868375:1 // chr1 // 100 // 100 // 4 // 4 // 0
2315271 chr1 NC_000001.9 + 427716 427879 4 --- GENSCAN00000027902 // ENSEMBL Prediction // cdna:Genscan chromosome:NCBI36:6:170861198:170868375:1 // chr1 // 100 // 100 // 4 // 4 // 0

Total number of rows: 337421

Table truncated, full table size 57314 Kbytes.




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

Supplementary file Size Download File type/resource
GPL9793_HuEx-1_0-st-v2,coreR3,A20071112,EP.cdf.gz 6.9 Mb (ftp)(http) CDF
GPL9793_HuEx-1_0-st-v2.na26.hg18.transcript.csv.gz 18.0 Mb (ftp)(http) CSV
GPL9793_gene_assignments.txt.gz 123.0 Kb (ftp)(http) TXT

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