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Platform GPL4737 Query DataSets for GPL4737
Status Public on Dec 01, 2008
Title Zebrafish Paired End DiTags
Technology type other
Distribution virtual
Organism Danio rerio
Manufacturer not applicable
Manufacture protocol See full protocol in:
Gene Identification Signature (GIS) analysis for transcriptome analysis and genome annotation. Nature Method 2005 2(2):105-111.
 
Description Paired End DiTags (PET) derived from 5 Zebrafish libraries.
Used a DNA tag sequencing and mapping strategy called gene identification signature (GIS) analysis, in which 5' and 3' signatures of full-length cDNAs are accurately extracted into paired-end ditags (PETs) that are concatenated for efficient sequencing and mapped to genome sequences to demarcate the transcription boundaries of every gene. GIS analysis is potentially 30-fold more efficient than standard cDNA sequencing approaches for transcriptome characterization.
Mappings based on Genome Build: Zv6 (March 2006)
 
Submission date Jan 09, 2007
Last update date Dec 01, 2008
Contact name Chia Lin Wei
Organization name Genome Institute Of Singapore
Street address 60 Biopolis Street, #02-01, Genome
City Singapore
ZIP/Postal code 138672
Country Singapore
 
Samples (5) GSM154487, GSM154488, GSM154489, GSM154490, GSM154491
Series (1)
GSE6694 Zebrafish Paired End DiTag libraries

Data table header descriptions
ID PET sequence
MappingCoordinates PET mapping coordinates (Zv6)
MappingLength5 PET 5' Match
MappingLength3 PET 3' Match

Data table
ID MappingCoordinates MappingLength5 MappingLength3
AAAAAAAACAAAGTCACACTCAATCTAAAGTTACC chr6:32506235-32710482 1,16 (16) 18,31 (14)
AAAAAAAACAATATAGAAATCACTGAATTGTGTCT chr20:13782296-13844000 1,16 (16) 19,32 (14)
AAAAAAAACAATTAGATTTACGTTTCAGAATTTTCCG chr10:4405802-4823524 1,16 (16) 19,32 (14)
AAAAAAAACACACCAAGAAGGTCTGTTTTTATGTAACCTT chrUn:8970875-8971848 2,19 (18) 20,36 (17)
AAAAAAAACACAGACTCCAAAACATTATCACAAC chr6:43247812-43548970 1,16 (16) 20,33 (14)
AAAAAAAACACCATACTGGTATTTTACTTTGAGT chr8:46808646-47637567 1,17 (17) 20,33 (14)
AAAAAAAACACGTGTGTGCAAATTGGGTGAAAAAG chr9:3573185-4026176 1,16 (16) 20,33 (14)
AAAAAAAACACTGGCTACTGGTATCATGTCTTAATT chr2:37453548-37454011 3,19 (17) 19,35 (17)
AAAAAAAACACTTAATAATTGTTTAGTACATGTCCGACTT chr7:28152976-28809123 2,18 (17) 20,33 (14)
AAAAAAAACAGAAAGAAAACAGATAAGTGATAAG chr5:41097671-41866015 1,17 (17) 19,33 (15)
AAAAAAAACAGTATGGCAGCTTAAAAGTTTAAAAA chr14:65075750-65401132 1,16 (16) 20,34 (15)
AAAAAAAACAGTATGGCAGTAAACTCTTAAAGTTT chr14:64508821-65401132 1,16 (16) 18,31 (14)
AAAAAAAACAGTTCTCTCGCAAATATAAAAGAAAAG chrUn:8019888-8898773 1,16 (16) 20,35 (16)
AAAAAAAACATGCCTAAATACCATGCAGGAAGACACGACG chr9:34803649-34805484 1,19 (19) 20,34 (15)
AAAAAAAACATGGCGTTAGCTAAAAGTTTGTAATGACTGT chr3:71295391-71401658 1,16 (16) 20,35 (16)
AAAAAAAACATGGCGTTGCACATCTAATATAAAA chr5:29438099-29747550 1,17 (17) 20,33 (14)
AAAAAAAACATGGCGTTGCACATCTATATAAAACACACTG chr7:10038311-10115775 2,19 (18) 20,33 (14)
AAAAAAAACATGGCGTTGCACATCTATATAAAACC chr7:10038311-10115775 2,19 (18) 19,33 (15)
AAAAAAAACATGGCGTTGCACATCTATATAAAACCGAGTT chr7:10038311-10115775 2,19 (18) 20,33 (14)
AAAAAAAACATTAGATTTACGTTCAGAATTTCCG chr13:54132916-54133308 1,18 (18) 19,33 (15)

Total number of rows: 663674

Table truncated, full table size 52664 Kbytes.




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Supplementary data files not provided
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