Version 3 (modified by 18 years ago) (diff) | ,
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Track Catalog
MedakaTrasncripts?
MedakaTrasncripts

This track shows a total set of medaka transcripts from Unigne database build#19 in ncbi. Transcripts are initially aligned using BLASTN and listed the scaffolds which show the best match. The final alignments were produced between transcrips and the selected scaffolds using sim4, a program to align cDNA and genomic DNA (ref. 1). In some case, transcripts are mapped to unexpectedlly huge region because of the low complexity sequences in the transcripts. We eliminated these regions when the mapped region is over 200 kb.
Black-colored boxes indicate aligned regions and bars indicate gaps. Arrows indicate the transcription directions. Click on each transcript opens a link to the information in the NCBI nucleotide database.
ESTs and mRNAs are represented by the clone names and gi numbers, respectively.
Reference:
(1) Florea,L., Hartzell,G., Zhang,Z., Rubin,G.M. and Miller,W. (1998)Computer program for aligning a cDNA sequence with a genomic DNA sequence. Genome Res., 8: 967.974.
Attachments (57)
- MedakaTrasncripts.html (1.5 KB) - added by 18 years ago.
- ChromosomeOverView.html (1.3 KB) - added by 18 years ago.
- ChrView2.jpg (155.5 KB) - added by 18 years ago.
- ChrView.jpg (78.7 KB) - added by 18 years ago.
- ChrViewZoom.jpg (36.2 KB) - added by 18 years ago.
- EnsenblPredGene.html (898 bytes) - added by 18 years ago.
- GeneticMappingPanel & Markers.html (4.8 KB) - added by 18 years ago.
- GeneticMappingPanel & Markers.2.html (4.8 KB) - added by 18 years ago.
- EST_libraries.htm (8.2 KB) - added by 18 years ago.
- image028.jpg (3.3 KB) - added by 18 years ago.
- image029.jpg (2.2 KB) - added by 18 years ago.
- image030.jpg (2.1 KB) - added by 18 years ago.
- image031.jpg (742 bytes) - added by 18 years ago.
- image034.jpg (976 bytes) - added by 18 years ago.
- image035.jpg (3.5 KB) - added by 18 years ago.
- image036.jpg (5.9 KB) - added by 18 years ago.
- image037.jpg (29.4 KB) - added by 18 years ago.
- image038.jpg (7.0 KB) - added by 18 years ago.
- image039.jpg (4.8 KB) - added by 18 years ago.
- image040.jpg (1.8 KB) - added by 18 years ago.
- image032.jpg (3.0 KB) - added by 18 years ago.
- image033.jpg (3.0 KB) - added by 18 years ago.
- track_overview.png (3.3 KB) - added by 18 years ago.
- 5sage.png (243.2 KB) - added by 18 years ago.
- bac.png (610.5 KB) - added by 18 years ago.
- coverage.png (78.6 KB) - added by 18 years ago.
- fosmid.png (404.1 KB) - added by 18 years ago.
- homo.png (940.0 KB) - added by 18 years ago.
- pred.png (697.8 KB) - added by 18 years ago.
- qv.png (83.0 KB) - added by 18 years ago.
- repeat.png (511.7 KB) - added by 18 years ago.
- hni.png (26.9 KB) - added by 18 years ago.
- EnTra.jpg (17.7 KB) - added by 18 years ago.
- Entra.jpg (17.7 KB) - added by 18 years ago.
- Entra.2.jpg (59.1 KB) - added by 18 years ago.
- geneticmarker.jpg (39.7 KB) - added by 18 years ago.
- MedakaTranscriptsSc150.jpg (31.2 KB) - added by 18 years ago.
- homo.jpg (77.9 KB) - added by 18 years ago.
- SSLP.jpg (8.5 KB) - added by 18 years ago.
- Mbase.jpg (15.3 KB) - added by 18 years ago.
- ff.png (183 bytes) - added by 18 years ago.
- OverView.png (27.7 KB) - added by 18 years ago.
- chr_scroll.2.jpg (372.0 KB) - added by 18 years ago.
- chr_scroll.jpg (265.0 KB) - added by 18 years ago.
- ChromosomeOverView.jpg (25.9 KB) - added by 18 years ago.
- Mutant.jpg (5.0 KB) - added by 18 years ago.
- ChromosomeOverView2.jpg (24.9 KB) - added by 18 years ago.
- ChromosomeOverView3.jpg (24.9 KB) - added by 18 years ago.
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5sagenew.jpg (11.1 KB) - added by 18 years ago.
5psage track file
- BAC.png (14.4 KB) - added by 18 years ago.
- BAC2.png (14.4 KB) - added by 18 years ago.
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expression.jpg (219.5 KB) - added by 17 years ago.
Expression track image
- nucleosome.jpg (61.8 KB) - added by 17 years ago.
- nucelosome.2.jpg (73.5 KB) - added by 17 years ago.
- nucelosome.jpg (73.5 KB) - added by 17 years ago.
- nucelo.jpg (73.5 KB) - added by 17 years ago.
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nucleosome.2.jpg (23.1 KB) - added by 17 years ago.
Sample of nucleosome tracks