Sequence
atgc intronic sequence ATGC exonic sequence...aataccatttttgttactggattaattagatctggatgtgacatcaagtgctactttgatctgatatgtttaatataaagtcaagtggttgattttgcagTATCCCAAAGATCATCGGAACCTCAATTCCAATGAAGGCAACTTTCTTCATAACTTACATAATGGTTGATGGATGGGCTGGAGTTTCTGGGGAGATTCTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0059g01090.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os01g35050.3 (Oryza sativa), 3'ss of exon 9
----aataccatttttgttactggatta-attagatctggatgtgacatcaagtgctactttgatctgatatgtttaatataaagtcaagtggttgattttgcagTATCCCAAAGATCATCGGAACCTCAATTCCAATGAAGGCAACTTTCTTCATAACTTACATAATGGTTGATGGATGGGCTGGAGTTTCTGGGGAGATTCTA
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catgctcttcatttgtgctacaatttcctattgtatttcctttctttttcgaa-gaaactcttatac--tccttttcaactgtacttatttgcct--ctttgcagAATACCAAGGACAATTGGTGAAGCAATTCCAATGAAAGCAACCTTTTTTATAACATATGTAATGGTTGATGGTTGGGCTGGGGTAGCTGGTGAAATTTTA
upper sequence: Vv12s0059g01090.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G021194_T01 (Zea mays), 3'ss of exon 9
-------aataccatttttgttactggattaattagatctggatgtgacatcaagtgctactttgatctgatatgtttaatataaagtcaagtggttgattttgcagTATCCCAAAGATCATCGGAACCTCAATTCCAATGAAGGCAACTTTCTTCATAACTTACATAATGGTTGATGGATGGGCTGGAGTTTCTGGGGAGATTCTA
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atttgaaggtcctgctattacca-tggcatatttaagccctttcgtttctccttttgcgtgtatgaatttatttatattgtctatttttcctcg------tttacagAATACCAAGGACGATTGGTGAAGCAATTCCAATGAAGGCAACCTTTTTTATAACATATACAATGGTTGATGGTTGGGCTGGGGTAGCTGGTGAGATATTG
upper sequence: Vv12s0059g01090.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G064189_T01 (Zea mays), 3'ss of exon 2
aataccatttttgttactggattaattagatctggatgtgacatcaagtgctactttgatctgatatgtttaat-ataaagtcaagtggttgat-tttgcagTATCCCAAAGATCATCGGAACCTCAATTCCAATGAAGGCAACTTTCTTCATAACTTACATAATGGTTGATGGATGGGCTGGAGTTTCTGGGGAGATTCTA
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--tttctggtatgtcactaatttgaaggtatatttaagccctttcgtttctccttttgcgtgtatgaatttatttatattgtctatttttcctcgtttacagAATACCAAGGACGATTGGTGAAGCAATTCCAATGAAGGCAACCTTTTTTATAACATATACAATGGTTGATGGTTGGGCTGGGGTAGCTGGTGAGATATTG
upper sequence: Vv12s0059g01090.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA02G43910.2 (Glycine max), 3'ss of exon 9
---aataccatttttgttactgga-ttaattagatctggatgtgacatcaagtgctactttgatctgatatgtttaatataaagtcaagtggttgattttgcagTATCCCAAAGATCATCGGAACCTCAATTCCAATGAAGGCAACTTTCTTCATAACTTACATAATGGTTGATGGATGGGCTGGAGTTTCTGGGGAGATTCTA
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caacttgcctcttctgacgataaagttttatagtcttgagggttatagatgtcacaaatagctttcaata-acctaaagtaaacatatgccatgtat---gcagAATTCCAAAAACAATTGGTGTCTCAATTCCAATGAAGGCAACTTTCTTCATAACTTACATAATGGTGGATGGGTGGGCTGGATGTGCTGGTGAGATTTTA
upper sequence: Vv12s0059g01090.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT4G15430.1 (Arabidopsis thaliana), 3'ss of exon 9
aataccatttttgttactggattaattagatctggatgtgacatcaagtgctactttgatctgatatgtttaatataaagtcaagtggttgattt-tgcagTATCCCAAAGATCATCGGAACCTCAATTCCAATGAAGGCAACTTTCTTCATAACTTACATAATGGTTGATGGATGGGCTGGAGTTTCTGGGGAGATTCTA
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----------------gtatgttctttagacctttctttgtc---------tgcatttcactgagagatatcatatctttctgactttttcatttctgcagTATTCCAAAAACAATTGGTGTCTCGATTCCAATGAAAGCGACCTTCTTTATAACATACATAATGGTGGATGGATGGGCTGGTGTTGCTGGTGAGATATTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagtgctactttgatctgatatgtttaatataaagtcaagtggttgattttgcagTATCCCAAAGATCATCGGAACCTCAATTCCAATGAAGGCAACTTTCTTCATAACTTACATAATGGTTGATGGATGGGCTGGAGTTTCTGGGGAGATTCTA
atctgatatgtttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aataccatttttgttactggattaattagatctggatgtgacatcaagtgctactttgatctgatatgtttaatataaagtcaagtggttgattttgcagTATCCCAAAGATCATCGGAACCTCAATTCCAATGAAGGCAACTTTCTTCATAACTTACATAATGGTTGATGGATGGGCTGGAGTTTCTGGGGAGATTCTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
aatacca
- - - - - - -ttactgg
- - - - - - - - - - - - - - - - -ggatgtg
- - - - - - - - - - - - - - - - - - - - acatcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaagtcaa