Sequence
atgc intronic sequence ATGC exonic sequence...tttcaatgctgtgcttattgcattggtctttcattgctaatactggaaataacagatctactattaacaaaagaataatattaaatttcaaactctttagGTAACTGAGCAACCAGCTATGCTTCAAGGTGGAGAATTAAGACCATACCAGTTAGAAGGGCTTCAATGGATGCTCTCTTTGTTCAATAACAATCTGAATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g02960.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os05g05230.1 (Oryza sativa), 3'ss of exon 6
--tttcaatgctgtgcttattgcattggtctttcattgctaatactggaaataacagatctactattaacaaaagaataatattaaatttca--aactctttagGTAACTGAGCAACCAGCTATGCTTCAAGGTGGAGAATTAAGACCATACCAGTTAGAAGGGCTTCAATGGATGCTCTCTTTGTTCAATAACAATCTGAATG
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ccttttcctgc-atcattacagtacaattgtagcgctctgcacttttggactcatgca---actaaaaacaaacattttttattccctttctttgaatttatagGTAACGGAACAACCATCAGCTCTTGAAGGTGGGGAGTTAAGACCATATCAATTAGAGGGCCTGCAATGGATGCTTTCTTTATTCAACAATAATTTGAATG
upper sequence: Vv05s0020g02960.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G102625_T01 (Zea mays), 3'ss of exon 3
-tttcaatgctgtgcttattgcattggtctttcattgctaatactggaaataacagatctactattaacaaaagaataatattaaatttcaaactctttagGTAACTGAGCAACCAGCTATGCTTCAAGGTGGAGAATTAAGACCATACCAGTTAGAAGGGCTTCAATGGATGCTCTCTTTGTTCAATAACAATCTGAATG
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tatgcaaaaatcatattagcacaaccattaattctgcgtgtttctggtga-acctaatgtttcgcttgtgtgtgtgtttctttttttttttgcatttacagGTAACAGAACAACCATCTGCTCTCGAAGGTGGTGAATTGAGACCATATCAGCTAGAAGGTCTCCAATGGATGCTTTCTCTATTTAACAACAATTTGAATG
upper sequence: Vv05s0020g02960.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA10G39630.1 (Glycine max), 3'ss of exon 4
--tttcaatgctgtgcttattgcattggtctttcattgctaata--ctggaaataacagatctactattaacaaaagaataatattaaatttcaaactctttagGTAACTGAGCAACCAGCTATGCTTCAAGGTGGAGAATTAAGACCATACCAGTTAGAAGGGCTTCAATGGATGCTCTCTTTGTTCAATAACAATCTGAATG
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ttttatcaagaaaaagaaaataaaaaagtcaatccttattagttgtttctgaataaaagttgtagca----cactggaaatataaccaacttaattgtttacagGTAACTGAGCAACCGTCTATGCTTCAAGGTGGAGAATTAAGACCATACCAGATAGAGGGGCTCCAATGGATGCTTTCTTTGTTTAATAACAACTTAAATG
upper sequence: Vv05s0020g02960.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA20G28120.1 (Glycine max), 3'ss of exon 7
-----------------------------------------------tttcaatgctgtgcttattgcattg-------------------gtctttcattgctaat--actggaaataacagatctactattaacaaaagaataatattaaatttcaaactctttagGTAACTGAGCAACCAGCTATGCTTCAAGGTGGAGAATTAAGACCATACCAGTTAGAAGGGCTTCAATGGATGCTCTCTTTGTTCAATAACAATCTGAATG
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gtaggaggattcctcatcctccaaatgcattgttgtattattttctgtttttatgaggttcttattttatcaaggaaaagaaaataaaaaagtcactccttattagttgtttctgaataaaagttgtagca----cactggaaatataaccaacttagttgtttacagGTAACTGAGCAACCGTCTATGCTTCAAGGTGGAGAATTAAGACCATACCAGATAGAGGGGCTCCAATGGATGCTTTCTTTGTTTAATAACAACTTAAATG
upper sequence: Vv05s0020g02960.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA11G00640.1 (Glycine max), 3'ss of exon 7
tttcaatgctgtgcttattgcattggtctttcattgctaatactggaaataacagatctactattaacaaaagaataatattaaatttcaaactctttagGTAACTGAGCAACCAGCTATGCTTCAAGGTGGAGAATTAAGACCATACCAGTTAGAAGGGCTTCAATGGATGCTCTCTTTGTTCAATAACAATCTGAATG
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----------------------gtaggtttctgtgatt--tacaaaattcaagagaattgtagt--acaatggaattctaactagcataattatttacagGTAAGCGAGCAACCATCTATTCTTCAAGGTGGAGAATTAAGACCATACCAACTAGAAGGCCTCCAGTGGATGCTTTCTTTGTTTAATAACAATTTAAATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaataacagatctactattaacaaaagaataatattaaatttcaaactctttagGTAACTGAGCAACCAGCTATGCTTCAAGGTGGAGAATTAAGACCATACCAGTTAGAAGGGCTTCAATGGATGCTCTCTTTGTTCAATAACAATCTGAATG
tattaac putative branch site (score: 1)
ctcttt putative PPT
tattaacaaaagaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttcaatgctgtgcttattgcattggtctttcattgctaatactggaaataacagatctactattaacaaaagaataatattaaatttcaaactctttagGTAACTGAGCAACCAGCTATGCTTCAAGGTGGAGAATTAAGACCATACCAGTTAGAAGGGCTTCAATGGATGCTCTCTTTGTTCAATAACAATCTGAATG
- -caatgct
- - - - - - - - - tgcattg
- - - - - - - - - - - - - - - -cattgct
- - - - - - - - - - - - - - - - - - - - - - ggaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaagaa