Sequence
atgc intronic sequence ATGC exonic sequence...tagtacaattgactagaaaacctccattgtaataattccagcgcactgctttatatagattgatgaatcataatcagcaaggtgaatgtgtgttgtgcagCTTCTGGTGAACCACCATTACTTCTAGCAGTTTCAGTCCACTGTGCTACAAGGGCAGCTATTAGAGAAGCCCGACAACAGCTTCTTCGTTGGACAGGGCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0041g02390.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA02G44000.1 (Glycine max), 3'ss of exon 9
-----tagtacaattgactagaaaacctccattgtaataattccagcgcactgctttatatagattgatgaatcataatcagcaaggtgaatgtgtgttgtgcagCTTCTGGTGAACCACCATTACTTCTAGCAGTTTCAGTCCACTGTGCTACAAGGGCAGCTATTAGAGAAGCCCGACAACAGCTTCTTCGTTGGACAGGGCT
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atatatgttattgtggactgttaa--taagattgagaaagcttcagt-tattgtggttcaaaaatcaagaattaatga--aagaaattgaaatttatttgtgcagCTTCCGGTGAACCACCACTACTTCTAGCAGCTTCTGTTCACTGTGCAACAAGAGCAGCTGCAAAAGAAGCCAAGAAGCAGCTTCTATCATGGAGCAACTT
upper sequence: Vv18s0041g02390.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA14G04950.1 (Glycine max), 3'ss of exon 9
----tag--tacaattgactagaaaacctccattgt-aataattccagcgcactgctttatatagattgatgaatcataatcagcaaggtgaatgtgtgttgtgcagCTTCTGGTGAACCACCATTACTTCTAGCAGTTTCAGTCCACTGTGCTACAAGGGCAGCTATTAGAGAAGCCCGACAACAGCTTCTTCGTTGGACAGGGCT
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gttgcagcctatattttattttacagtttatactgtcaataagattgagaaa--gctttactcatttcggtt-----tgaaaacctaaatttgttggcgcaatgcagCTTCTGGTGAGCCACCATTACTTCTAGCAGCCTCCATTCACTGTGCCACAAGAGCAGCTGTAAAAGAGGCAAGGAAACAGCTTCTTTCATGGAGCAACCA
upper sequence: Vv18s0041g02390.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA02G44000.2 (Glycine max), 3'ss of exon 4
tagtacaattgactagaaaacctccat----tgtaataattccagcgcactgctttatatagattgatgaatcataatcagcaaggtgaatgtgtgttg-tgcagCTTCTGGTGAACCACCATTACTTCTAGCAGTTTCAGTCCACTGTGCTACAAGGGCAGCTATTAGAGAAGCCCGACAACAGCTTCTTCGTTGGACAGGGCT
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---tatgttttattttagacttttaataagatggagaaaacatcacttattccagtttgaaaatcta-aaatgaaaaaaaataaactgaa-atttgttgctgcagCTTCTGGCGAGCCGCCATTACTTCTAGCAGCTTCCATTCACTGTGCCACAAGAGCAGCTGTAAAAGAAGCAAGGAAACAGCTTCTTTCATGGAGCAACCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgctttatatagattgatgaatcataatcagcaaggtgaatgtgtgttgtgcagCTTCTGGTGAACCACCATTACTTCTAGCAGTTTCAGTCCACTGTGCTACAAGGGCAGCTATTAGAGAAGCCCGACAACAGCTTCTTCGTTGGACAGGGCT
gattgat putative branch site (score: 4)
ttatatagattgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagtacaattgactagaaaacctccattgtaataattccagcgcactgctttatatagattgatgaatcataatcagcaaggtgaatgtgtgttgtgcagCTTCTGGTGAACCACCATTACTTCTAGCAGTTTCAGTCCACTGTGCTACAAGGGCAGCTATTAGAGAAGCCCGACAACAGCTTCTTCGTTGGACAGGGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - -acctcca
- - - - - - - - - - - - - - - - - -ttccagc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcagcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaatgtg