Sequence
atgc intronic sequence ATGC exonic sequence...tagttgtgagttttgtttaattagatttcattgtaccattttaagtttccttgtttcctagtaaaataataagtttaattttggtacaacattgttgtagGCATTATTTTATTCAGCATTACTTTGTGCACGGGAGATGCTTGCGCCAGAAGATGGATCCGCTGACCTTATCCGAGCACTGAATAATCGTTTAGTAGCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0074g00720.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os04g33490.1 (Oryza sativa), 3'ss of exon 3
tagttgtgagttttgtttaattagatttcattgtaccattttaagtttccttgtttcctagtaaaataataagtttaattttggtacaacattgttgtagGCATTATTTTATTCAGCATTACTTTGTGCACGGGAGATGCTTGCGCCAGAAGATGGATCCGCTGACCTTATCCGAGCACTGAATAATCGTTTAGTAGCAT
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cacatataggactacagtgtgcaaatgtcattcgggaaatggggcattatacgtttgctactaatttatacatgatgttcatatttcctttcttttgtagGCACTTTTCTATTCAGCTCTCTTGTGTGCACGTGAGATGCTTACCCCAGAAGATGGATCAGCTGACTTGATTCGTGCCCTAAATAGCAGGCTTATTGCAC
upper sequence: Vv13s0074g00720.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G15220.1 (Glycine max), 3'ss of exon 4
--tagttgtgagttttgtttaattagatttcattgtaccattttaagtttccttgtttcctagtaaaataataagtttaattttggtacaacattgttgtagGCATTATTTTATTCAGCATTACTTTGTGCACGGGAGATGCTTGCGCCAGAAGATGGATCCGCTGACCTTATCCGAGCACTGAATAATCGTTTAGTAGCAT
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cacaatc-tgagatacttacaattaaagatgaaattagtgttcaagaaatcttctctaacgtgtattctcttttgctttttgttaatttttcggt-ttctagGCACTGTTTTATTCTGCCTTACTTTGTGCACGTGAGATGCTTACTCCAGAGGATGGATCAGCTGATCTTATACGGGCACTGAACAACCGTCTGGTAGCTC
upper sequence: Vv13s0074g00720.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G31920.1 (Glycine max), 3'ss of exon 3
-----tagttgtgagttttgtttaattagatttcattgtaccattttaagtttccttgtttcctagtaaaataataagtttaattttggtacaacattgttgtagGCATTATTTTATTCAGCATTACTTTGTGCACGGGAGATGCTTGCGCCAGAAGATGGATCCGCTGACCTTATCCGAGCACTGAATAATCGTTTAGTAGCAT
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acacacaatta-gagaaacttaaaattaaatatgaaattagtgttcaagtaatcttctctaacttgtattctcttttgctt---tttaatttttctgt-ttctagGCACTGTTTTATTCTGCCTTACTTTGTGCACGTGGGATGCTTACTCCAGAGGATGGATCAGCTGATCTTATACAGGCACTGAACAATCGTCTGGTAGCTCMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|294964217|gb|GW838020.1|GW838020EST: GTATGATAGACCGCCGCATGGGGATTCATGGCCATCCATTGGAAATCCAG GCATTATTTTATTCAGCATTACTTTGTGCACGGGAGATGCTTGCGCCAGAA
genomic: GTATGATAGACCGCCGCATGGGGATTCATGGCCATCCATTGGAAATCCAGgtagatggtt ... attgttgtagGCATTATTTTATTCAGCATTACTTTGTGCACGGGAGATGCTTGCGCCAGAA
EST:
gi|110732966|gb|EE108716.1|EE108716EST: GTATGATAGACCGCCGCATGGGGATTCATGGCCATCCATTGGAAATCCAG GCATTATTTTATTCAGCATTACTTTGTGCACGGGAGATGCTTGCGCCAGAA
genomic: GTATGATAGACCGCCGCATGGGGATTCATGGCCATCCATTGGAAATCCAGgtagatggtt ... attgttgtagGCATTATTTTATTCAGCATTACTTTGTGCACGGGAGATGCTTGCGCCAGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttccttgtttcctagtaaaataataagtttaattttggtacaacattgttgtagGCATTATTTTATTCAGCATTACTTTGTGCACGGGAGATGCTTGCGCCAGAAGATGGATCCGCTGACCTTATCCGAGCACTGAATAATCGTTTAGTAGCAT
gtttaat putative branch site (score: 4)
tttcctagtaaaataa TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagttgtgagttttgtttaattagatttcattgtaccattttaagtttccttgtttcctagtaaaataataagtttaattttggtacaacattgttgtagGCATTATTTTATTCAGCATTACTTTGTGCACGGGAGATGCTTGCGCCAGAAGATGGATCCGCTGACCTTATCCGAGCACTGAATAATCGTTTAGTAGCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - -ccatttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaataa