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Status
Public on Oct 30, 2003
Title
Expression of Intergenic Clusters
Organism
Arabidopsis thaliana Experiment type
Expression profiling by genome tiling array
Summary
Contains a row for each intergenic cluster in each sample, indicating whether our analysis called the cluster "present" or "absent" in the sample. Intergenic clusters are novel (unannotated) genes detected by aligning Arabidopsis cDNAs/ESTs to the genome. Cluster coordinates refer to version 3 of the TIGR annotation as submitted to GenBank (GI numbers 22330780, 22326553, 22331929, 22329272, 22328163).
Web link
http://signal.salk.edu
Contributor(s)
Dale JM , Chen H , Cheuk R , Kim C , Lim J , Palm CJ , Shinn P , Southwick AM , Wu HC , Yamada K , Davis RW , Ecker JR , Theologis A Citation(s)
14593172 Submission date
Sep 08, 2003
Last update date
Mar 02, 2012
Contact name
Atsunari Tsuchisaka
E-mail(s)
guixiay@yahoo.com, atsunaritsuchisaka@gmail.com Phone
510-559-5924
Organization name
University of California, Berkeley / USDA
Department
Plant Gene Expression Center
Street address
800 Buchanan St.
City
Albany
State/province
CA
ZIP/Postal code
94710
Country
USA
Platforms (16)
GPL428 Arabidopsis Pilot Genome Tiling Array 1A
GPL429 Arabidopsis Pilot Genome Tiling Array 1B
GPL430 Arabidopsis Pilot Genome Tiling Array 1C
GPL431 Arabidopsis Pilot Genome Tiling Array 1D
GPL432 Arabidopsis Whole Genome Tiling Array 1-1
GPL433 Arabidopsis Whole Genome Tiling Array 1-2
GPL434 Arabidopsis Whole Genome Tiling Array 1-3
GPL435 Arabidopsis Whole Genome Tiling Array 1-4
GPL436 Arabidopsis Whole Genome Tiling Array 1-5
GPL437 Arabidopsis Whole Genome Tiling Array 1-6
GPL438 Arabidopsis Whole Genome Tiling Array 1-rc-1
GPL439 Arabidopsis Whole Genome Tiling Array 1-rc-2
GPL440 Arabidopsis Whole Genome Tiling Array 1-rc-3
GPL441 Arabidopsis Whole Genome Tiling Array 1-rc-4
GPL442 Arabidopsis Whole Genome Tiling Array 1-rc-5
GPL443 Arabidopsis Whole Genome Tiling Array 1-rc-6
Samples (72)
Relations BioProject
PRJNA87551
intergenic-cluster-expression header descriptions SAMPLE Sample accession number
CHROMOSOME Chromosome on which cluster is located
START Genomic start coordinate of cluster
END Genomic end coordinate of cluster
COORDS Genomic coordinates of putative coding sequences contained in cluster
CALL Whether putative coding region of cluster is present or absent in sample
Data table SAMPLE CHROMOSOME START END COORDS CALL GSM8942 1
81731
81786
81731..81786
absent
GSM8942 1
342822
343153
342822..343153
absent
GSM8942 1
593946
594236
593946..594236
absent
GSM8942 1
599351
599690
599351..599690
absent
GSM8942 1
712473
712830
712473..712830
absent
GSM8942 1
747228
748423
join(747228..747469,748102..748423)
absent
GSM8942 1
765502
766153
join(765502..765600,765753..766153)
present
GSM8942 1
888408
888781
888408..888781
absent
GSM8942 1
936653
937042
936653..937042
absent
GSM8942 1
1599955
1600194
1599955..1600194
present
GSM8942 1
1714949
1715316
1714949..1715316
present
GSM8942 1
1862196
1862741
1862196..1862741
absent
GSM8942 1
1941202
1941236
1941202..1941236
absent
GSM8942 1
2030979
2031228
2030979..2031228
absent
GSM8942 1
2407604
2408051
2407604..2408051
present
GSM8942 1
2443826
2444463
2443826..2444463
absent
GSM8942 1
2635205
2635839
join(2635205..2635619,2635784..2635839)
absent
GSM8942 1
2839147
2840979
join(2839147..2839307,2839843..2839974,2840506..2840979)
present
GSM8942 1
2855133
2855779
join(2855133..2855192,2855278..2855398,2855492..2855779)
absent
GSM8942 1
2887288
2887709
2887288..2887709
absent
4184 369 Kbytes .Supplementary data files not provided
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