Sequence
atgc intronic sequence ATGC exonic sequence...tagtctgtttattctttcttaccatctgaagtgtcaaattaaaatatttcaaagcatgaataattacagaatccttacgttttttcttttcatgatgtagATGGGTGGTAGAAACACTGTCCTTTTGGATGCTATCAGTTGCAGGATACCATTAGTTAGTGACATACCAACCATAATATTTGGAGCAGATGTGACGCATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os06g39640.1 (Oryza sativa), 3'ss of exon 13
-------------------tagtctgtttattcttt-cttaccatctgaagtgtcaaattaaaatatttcaaagcatgaataattacagaatccttacgttttttcttttcatgatgtagATGGGTGGTAGAAACACTGTCCTTTTGGATGCTATCAGTTGCAGGATACCATTAGTTAGTGACATACCAACCATAATATTTGGAGCAGATGTGACGCATC
| | ||| || ||| ||| | | || ||| | | | | | || | ||| | | |||| | ||| || |||| ||||||| || |||||||| || || ||||||| || ||||| ||||| || || || |||||||||||||| || |||||||| |||||||| |||||||
gtaccaaatacttataaaccaagcagttaatacttagcttgtctacacaaatgtagtgtaatgcagtaagcagacttgcagcattgctaatgccttgcatttcggagtt--gtgatacagATGGGAGGAAGAAACACCGTGCTGCTGGATGCAATAAGTTGGAGGATTCCTTTGGTCAGTGACATACCAACTATTATATTTGGTGCAGATGTCACGCATC
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 13
tagtctgtttatt-ctttcttaccatctgaagtgtcaaattaaaatatttcaaagcatgaataattacagaatccttacgttttttcttttcatgatgtagATGGGTGGTAGAAACACTGTCCTTTTGGATGCTATCAGTTGCAGGATACCATTAGTTAGTGACATACCAACCATAATATTTGGAGCAGATGTGACGCATC
| ||| | || || | | || | || ||| || || | || | | | | || | || | | | || ||||||| || ||||||||||| || |||| || || ||||| ||||| || || || |||||||| ||||| || |||||||| |||||||| || ||||
----gtacttaccaccttgtttatacataaaata-cagtttagaacatca-actatataagtggctctattat--tgactaatggtaccaataaaattcagATGGGAGGAAGAAACACTGTGCTCCTGGACGCAATAAGTTGGAGGATTCCGTTGGTCAGTGACATCCCAACTATTATATTTGGTGCAGATGTAACACATC
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA20G28970.1 (Glycine max), 3'ss of exon 14
-tagtctgtttattctttc-ttaccatctgaagtgtcaaattaaaatatttcaaagcatgaataattacagaatccttacgttttttcttttcatgatgtagATGGGTGGTAGAAACACTGTCCTTTTGGATGCTATCAGTTGCAGGATACCATTAGTTAGTGACATACCAACCATAATATTTGGAGCAGATGTGACGCATC
| | ||||| | ||| | | || | | | | | | | | |||| || | | | | || || || || ||||| ||||||| |||||||||||||| ||| | |||||| | || ||||| |||||||| ||||||||||||||||||||||| |||||||||||||| || || |
acttttggggtattcatgaattaaaaattaaaattgctattacttttgataaatgctttcaatagctaaatagtggtcac--ttaccctcctcttgatgcagATGGGAGGTAGAAACACTGTACTTCTTGATGCTGTAAGCTGCAGAATACCATTGGTTAGTGACATACCAACCATAATTTTTGGAGCAGATGTAACCCACC
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA02G00510.1 (Glycine max), 3'ss of exon 13
--tagtctgtttattctttcttaccatctgaagtgtcaaattaaaatatttcaaagcatgaataattacagaatcctta-cgttttttcttttcatgatgtagATGGGTGGTAGAAACACTGTCCTTTTGGATGCTATCAGTTGCAGGATACCATTAGTTAGTGACATACCAACCATAATATTTGGAGCAGATGTGACGCATC
||||| | | || | | || | | | || | | || | || || ||| | | | ||| || ||| | ||| ||||||| ||||||||||| || ||| | |||||| | || || || |||||||| ||||||||||||||||| |||||||||||||||||||| || ||||
tgtagtc-atccctgctctatggatattgtcggaatta--tttgacttctttggaatgcttccaacaactaaataatgatcatttgacctcttcttaatgcagATGGGAGGTAGAAACACCGTTCTTGTTGATGCTGTAAGCTGTAGAATACCATTGGTTAGTGACATACCAACTATAATATTTGGAGCAGATGTTACCCATC
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA10G38770.1 (Glycine max), 3'ss of exon 14
-tagtct--gtttattctttcttaccatctgaagtgtcaaattaaaatatttcaaagcatg-aataattacagaatccttacgttttttcttttcatgatgtagATGGGTGGTAGAAACACTGTCCTTTTGGATGCTATCAGTTGCAGGATACCATTAGTTAGTGACATACCAACCATAATATTTGGAGCAGATGTGACGCATC
|| | | | ||||| | | | || || | ||| | | || || | ||||| || | | | | || || || || ||||| ||||||| |||||||||||||| ||| | |||||| | || |||| |||||||| ||||||||||| ||||||||||| || ||||||||||| || || |
ctacttttggggtattcatgttgaaaattaaaatcacta--ttacttttgataaaggctttcaataactaaatagtggtcac--ttaccctcctcttgatgcagATGGGAGGTAGAAACACTGTACTTCTTGATGCTGTAAGCAGCAGAATACCATTGGTTAGTGACATGCCAACCATAATTTTCGGAGCAGATGTAACCCACC
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA10G00530.1 (Glycine max), 3'ss of exon 5
--tagtctgtttattctttcttaccatctgaagtgtcaaattaaaatatttcaaagcatgaataattacagaatccttacg-ttttttcttttcatgatgtagATGGGTGGTAGAAACACTGTCCTTTTGGATGCTATCAGTTGCAGGATACCATTAGTTAGTGACATACCAACCATAATATTTGGAGCAGATGTGACGCATC
||||| | | | || | | || | | | || | | || | || || | | | | | ||| || ||| ||||| ||||||| ||||||||||| || || | |||||| | || || || |||||||| ||||||||||||||||| |||||||||||||| ||||| || ||||
tgtagtc-atctctgctctatggatattgttggaatta--tttgacttctttggtatgtttccaacaactaattaatgatgatttgacctcttcttgatgcagATGGGAGGTAGAAACACCGTTCTGGTTGATGCTGTAAGCTGTAGAATACCATTGGTTAGTGACATACCAACTATAATATTTGGAGCGGATGTTACCCATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttcaaagcatgaataattacagaatccttacgttttttcttttcatgatgtagATGGGTGGTAGAAACACTGTCCTTTTGGATGCTATCAGTTGCAGGATACCATTAGTTAGTGACATACCAACCATAATATTTGGAGCAGATGTGACGCATC
tccttac putative branch site (score: 2)
tccttacgttttttct CT-rich tract
aataattacagaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagtctgtttattctttcttaccatctgaagtgtcaaattaaaatatttcaaagcatgaataattacagaatccttacgttttttcttttcatgatgtagATGGGTGGTAGAAACACTGTCCTTTTGGATGCTATCAGTTGCAGGATACCATTAGTTAGTGACATACCAACCATAATATTTGGAGCAGATGTGACGCATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - -ccatctg
- - - - - - - - - - - - - - - - - -aaattaa
- - - - - - - - - - - - - - - - - - - - - - - - -caaagca