Sequence
atgc intronic sequence ATGC exonic sequencegtgagcaactgcatccaaattactaaaagctaaaattccaggaaaatcatgagtagaaaatgactgaaaggaaaatatttgttgcagGATGTCGGGCAGGCGATCCTGGAGAGCTACTCTAGAGTGTTGGAAAGTCTAGCATTCAGCATTGTTGCTTGGATTGAAGATGTATTACATGAAGACAGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0046g02530.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G071157_T01 (Zea mays), 3'ss of exon 6
------------------------------------------------------------------------------------------------------gtgagcaactgcatccaaattactaaaagctaaaattccaggaaaatcatgagtagaaaatgactgaaaggaaaatatttgttgcagGATGTCGGGCAGGCGATCCTGGAGAGCTACTCTAGAGTGTTGGAAAGTCTAGCATTCAGCATTGTTGCTTGGATTGAAGATGTATTACATGAAGACAGAA
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gtaacctgagttgtgtaaccacatttgggcaagcacacaagatcatatatattagttggcatttccttctttttatttaatccgtcttctcatacagatacagcagacaataaaggcacagttgcctgcactgaaattatgttcgtgattctgatcaga---tgacctgaactgacaaattt--tgcagGATGTTGGGCAAGCGATCCTGGAGAGCTACTCGAGGGTGTTGGAGAGCTTGGCTTTCAACATTGTTTCGTGGATCGATGATGTCCTTTTCGTCGACAGGT
upper sequence: Vv15s0046g02530.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA18G46690.1 (Glycine max), 3'ss of exon 7
--------------gtgagcaactg-catccaaattactaaaagctaaaattccagga----aaatcatgagtagaaaatgactgaaaggaaaatatttgttgcagGATGTCGGGCAGGCGATCCTGGAGAGCTACTCTAGAGTGTTGGAAAGTCTAGCATTCAGCATTGTTGCTTGGATTGAAGATGTATTACATGAAGACAGAA
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attttaggacactattatatgaatatcatctatttaatgtaaagtaaatatgtttgaatttgggatcatggactaagaatgat-----gatgattatgttttgcaGGATGTGGGGAAAGCAGTACTAGAGAGTTATTCAAGAGTTTTGGAAGGCCTAGCATTCAACATTGTTGCATGGATTGAAGATGTTCTTTATGTAGATAAA-
upper sequence: Vv15s0046g02530.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA09G39560.1 (Glycine max), 3'ss of exon 7
-------------gtgagcaactgcatccaaattactaaaagctaaaattccaggaaaatcatga-gtagaaaatgactgaaaggaaaatatttgttgcagGATGTCGGGCAGGCGATCCTGGAGAGCTACTCTAGAGTGTTGGAAAGTCTAGCATTCAGCATTGTTGCTTGGATTGAAGATGTATTACATGAAGACAGAA
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ttttaggacaccattatatgaatatcatctagttattgtaaagtaaatgtgtttgaattttggatcgtggactaaggatgat-gattattatgtttttcagGATGTAGGGAATGCAATACTAGAGAGTTATTCAAGAGTTTTGGAAGGCCTAGCATTCAACATTGTTGCATGGATTGAAGATGTTCTTTATGTTGATAAAT
upper sequence: Vv15s0046g02530.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA07G07980.1 (Glycine max), 3'ss of exon 7
----------------------------------------------------------------------------gtgagcaact---gcatccaaattactaaaagcta----aaattccaggaaa-atcatgagtagaaaat----gact--gaaaggaaaatatttgttgcagGATGTCGGGCAGGCGATCCTGGAGAGCTACTCTAGAGTGTTGGAAAGTCTAGCATTCAGCATTGTTGCTTGGATTGAAGATGTATTACATGAAGACAGAA
||| || | | ||| || | | ||| | | | || | | ||| || || || | |||| ||| | | ||| | |||||||||| || | ||||| | || |||||||| ||||| || ||| | ||||||||| |||||| ||||||||||||||||| | | || || | |
gtaagttcagccacttacaacatatcaagttgaaaaataacaaaaaagacattacgaggtcatttttttacaaatgatgaacattttaggacaccatgatatggatatctattgtagaaactagcagatatctagattatgaactcatggactaagaatgagtattatcttctgcagGATGTAGGAAAAGCGATATTAGAAAGCTACTCAAGAGTATTAGAAGGCTTAGCATTCAACATTGTAGCTTGGATTGAAGATGTTCTTCTTGCTGATAAAT
upper sequence: Vv15s0046g02530.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA03G01560.1 (Glycine max), 3'ss of exon 7
----------------------------------------------------------------------gtgagcaactgcatccaaat-tact--aaaagctaaaattccaggaaaatcatgagtagaaaatgactgaaaggaaaatatt---tgttgcagGATGTCGGGCAGGCGATCCTGGAGAGCTACTCTAGAGTGTTGGAAAGTCTAGCATTCAGCATTGTTGCTTGGATTGAAGATGTATTACATGAAGACAGAA
| | | || | || |||| | || ||| | | | || ||| | |||| ||| |||||| | |||||||||| || | ||||| | || |||||||| ||||| || ||| | ||||||||| |||||| ||||||||||||||||| | |||| ||| | |
gtaagtttaacctagccggttacgatttcatagcaagttgaaaaataacttacaaatgaaccacattttaggacaccatgatatggatatctactgtagaaactagcaaat-atctagattgtgaactcatgatgaactaaaaatgaatattatattctgcagGATGTAGGAAAAGCGATATTAGAAAGCTACTCAAGAGTATTAGAAGGCTTAGCATTCAACATTGTAGCTTGGATTGAAGATGTTCTTCATGCAGATAAAT
upper sequence: Vv15s0046g02530.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: PP1S34_404V6.1 (Physcomitrella patens), 3'ss of exon 7
-----gtgagca----actgcatc-caaattactaaaagctaaaattccaggaaaatcatgagtag--aaaatgactgaaaggaaaatat-ttgt--tgcagGATGTCGGGCAGGCGATCCTGGAGAGCTACTCTAGAGTGTTGGAAAGTCTAGCATTCAGCATTGTTGCTTGGATTGAAGATGTATTACATGAAGACAGAA
|||||| ||| |||| || | | | || || |||| | || | | | | | | | | | ||| |||||||||| |||||| | || || ||||| |||||| ||||| ||||||||||||| |||| || || | | ||||| || || | ||| ||||
tactaatgagcattatacttcatcgtctgttggcataggtta--gtttcagggtgtttatcaatgtttgggctattttgacgcatcgtttgttgcaatgcagGATGTGGGGCAGTCAATTCTCGAGAGTTACTCTCGAGTGCTGGAAAGTCTAGCCTTCACTATCATTTCGCGTATTGATGACGTCCTGTATGCGGACAATC
upper sequence: Vv15s0046g02530.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: PP1S7_228V6.1 (Physcomitrella patens), 3'ss of exon 7
---------------------------------------------------------------gtgagcaactgcatccaaattactaaaagctaaaat-tccaggaaaatcatgagtagaaa-atgactgaaaggaaaatatttgt--tgcagGATGTCGGGCAGGCGATCCTGGAGAGCTACTCTAGAGTGTTGGAAAGTCTAGCATTCAGCATTGTTGCTTGGATTGAAGATGTATTACATGAAGACAGAA
|| | ||| || ||| | | | | || | | | || | || || || | | ||||||||||||||||| |||| ||||| |||||||| | ||| |||||||||||||| || ||| | || | || || || || | ||| ||
gtatgttcacaaccacagttcttataagaaacatcctcacttcgcccccttgttcattcaaacaatagaggcctcattcacgcaacttggattcgacgtgtgcacgcagcacttggaccgtgttataaccgaccatattgttgcaaaaatgcagGATGTCGGGCAGTCGATTCTGGAAAGCTACTCCCGTGTGCTGGAAAGTCTAGCACACAACATCATCGCACGCATCGACGACGTCCTGTATGCCAACGACC
upper sequence: Vv15s0046g02530.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: EFJ28174 (Selaginella moellendorffii), 3'ss of exon 5
gtgagcaactgcatccaaattactaaaagctaaaattccaggaaaatcatgagtagaaaatgactgaaaggaaaatatttgttgcagGATGTCGGGCAGGCGATCCTGGAGAGCTACTCTAGAGTGTTGGAAAGTCTAGCATTCAGCATTGTTGCTTGGATTGAAGATGTATTACATGAAGACAGAA
|| || | | | | | | | | | | | ||| |||||||| || ||||| || || ||||||||||| ||||| ||||| ||||| |||| ||||||| | || ||||||| || ||| | | || |
---------------------------gtctgttctttcttttatggagctgattgta--taaatcactcctacttggttgcaacagGATGTTGGCCAGGCAATTCTCGAGAGCTACTCGAGAGTTTTGGAGAGTCTGGCATACAGCATTCTCTCTCGGATTGACGACGTACTGTACATAGCGGACA
upper sequence: Vv15s0046g02530.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: EFJ29665 (Selaginella moellendorffii), 3'ss of exon 5
gtgagcaactgcatccaaattactaaaagctaaaattccaggaaaatcatgagtagaaaatgactgaaaggaaaatatttgttgcagGATGTCGGGCAGGCGATCCTGGAGAGCTACTCTAGAGTGTTGGAAAGTCTAGCATTCAGCATTGTTGCTTGGATTGAAGATGTATTACATGAAGACAGAA
| | | | | ||| ||| | | |||| |||||||| || ||||| || || ||||||||||| ||||| ||||| ||||| |||| ||||||| | || ||||||| || || | | || |
------------------------gtctgttctttcttttatggagccgattgtataaattactcctactt----cgtttgcaacagGATGTTGGCCAGGCAATTCTCGAGAGCTACTCGAGAGTTTTGGAGAGTCTGGCATACAGCATTCTCTCTCGGATTGACGACGTGCTGTACATAGCGGACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaattccaggaaaatcatgagtagaaaatgactgaaaggaaaatatttgttgcagGATGTCGGGCAGGCGATCCTGGAGAGCTACTCTAGAGTGTTGGAAAGTCTAGCATTCAGCATTGTTGCTTGGATTGAAGATGTATTACATGAAGACAGAA
agctaaa putative branch site (score: 3)
aaaggaaaatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagcaactgcatccaaattactaaaagctaaaattccaggaaaatcatgagtagaaaatgactgaaaggaaaatatttgttgcagGATGTCGGGCAGGCGATCCTGGAGAGCTACTCTAGAGTGTTGGAAAGTCTAGCATTCAGCATTGTTGCTTGGATTGAAGATGTATTACATGAAGACAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA