Sequence
atgc intronic sequence ATGC exonic sequence...ttatgttttatgctctgacttatcacacttttgttctgtcatctaaaattgtgttttatatggtttattttactttaactttggtcttgtcctttcacagGTTCAGCTGATAGAACTGTTAAATTCTGGGACCTTGAAACTTTTGAGTTGATTGGTTCAGCTGGACCTGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0071g01150.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G160702_T01 (Zea mays), 3'ss of exon 5
ttatgttttatgctctgacttatcacacttttgttctgtcatctaaaattgtgttttatatggt-ttattttactttaactttggtcttgtcctttca--cagGTTCAGCTGATAGAACTGTTAAATTCTGGGACCTTGAAACTTTTGAGTTGATTGGTTCAGCTGGACCTGAG
| | || || | || ||| | || | ||| || | || ||| | || | | | ||||| |||| ||||||||||||||| |||||| ||||||||||| | || || ||||| |||||||| || | |||||||||
---ggcagtgaagaatgtattcatatgtttgtgtgggagctcagaagactgtattccttttgaaactatatctctcttatgtaaaacttgttgcttcattcagGTTCAGCTGATAAAACTGTCAAATTCTGGGATTTGGAGACATTTGAATTGATTGGATCTACAGGACCTGAG
upper sequence: Vv10s0071g01150.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G406553_T04 (Zea mays), 3'ss of exon 5
ttatgttttatgctctgacttatcacacttttgttctgtcatctaaaattgtgttttatatggtttattttactttaactttggtcttgtcctttca-cagGTTCAGCTGATAGAACTGTTAAATTCTGGGACCTTGAAACTTTTGAGTTGATTGGTTCAGCTGGACCTGAG
|| | | || || | | || ||| | || | | | || | || | ||| | | | | ||| | ||||||||||||||| |||||| || |||||||| | || || |||||||||||||| || | |||||||||
-taggcagtgaagagtgtattcatatatttatgtgggagctcagaagagtatattccttttgaaactaaatctcttatgtaaaatttgttgcttccttcagGTTCAGCTGATAAAACTGTCAAGTTCTGGGATTTGGAGACATTTGAGTTGATTGGATCTACAGGACCTGAG
upper sequence: Vv10s0071g01150.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G09360.1 (Glycine max), 3'ss of exon 6
--------ttatgttttatgctctgacttatcacacttttgttctgtcatctaaaattgtgttttatatggtttattttactttaactttggtcttgtcctttcacagGTTCAGCTGATAGAACTGTTAAATTCTGGGACCTTGAAACTTTTGAGTTGATTGGTTCAGCTGGACCTGAG
|| |||||| | | || |||| ||| || | | | | ||| || | | ||| | || | || | | || || || ||| ||||| |||||||| ||||||||||||||||| ||||| |||||| | |||||||||||||| ||||||
ccgggttcttgtgttttct-tttggaagtatc---tatttttttttttaatttgaatgaagtcaagtgtaatttttatttcatttatctctttcctgggttt----agGCTCAGCAGATAGAACAGTTAAATTCTGGGACCTCGAAACCTTTGAGCTTATTGGTTCAGCTGGTCCTGAG
upper sequence: Vv10s0071g01150.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA19G00890.1 (Glycine max), 3'ss of exon 6
---ttatgttttatgctctgacttat-cacacttttgttctgtcatctaaaattgtgttttatatggtttattttactttaactttggtcttgtcctttcacagGTTCAGCTGATAGAACTGTTAAATTCTGGGACCTTGAAACTTTTGAGTTGATTGGTTCAGCTGGACCTGAG
| | || | | | || || | || | | | | ||| || | | ||| | || | || | | || || ||| || || |||||||| |||||||||||||| |||||||| |||||| | |||||||||||||| ||||||
tgctggattcttgggttttcttttggatgcatccatttttttttaatttgaatgaagtcaagtgtaatttttatttcatttatctctttcccacgttt----agGCTCGGCAGATAGAACAGTTAAATTCTGGGATCTTGAAACCTTTGAGCTTATTGGTTCAGCTGGTCCTGAG
upper sequence: Vv10s0071g01150.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G23430.2 (Arabidopsis thaliana), 3'ss of exon 6
ttatgttttatgctctgacttatcacacttttgttctgtcatctaaaat-tgtgttttatatggtttattttactttaa---ctttggtcttgtcctt--tcacagGTTCAGCTGATAGAACTGTTAAATTCTGGGACCTTGAAACTTTTGAGTTGATTGGTTCAGCTGGACCTGAG
| | ||||| ||| | | | ||| || || | || | || || || || || | || | ||| | | | ||||||||||||||||||||||| ||||||||||| || ||||| || ||| |||||||||| | ||||||||||
------ctcactctctgttaacgttcacctaaatatttacatggaatatgtaaaattagtgtgattacaaatatttgaagcattctgtttttgcctgtgctaacagGTTCAGCTGATAGAACTGTAAAATTCTGGGATCTGGAAACATTCGAGCTGATTGGTTCTGGTGGACCTGAG
upper sequence: Vv10s0071g01150.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G08390.1 (Arabidopsis thaliana), 3'ss of exon 6
ttatgttttatgctct-gacttatcacacttttgttctgtcatctaaaattgtgttttatatggtttattttactttaactttggtcttgtcctt--tcacagGTTCAGCTGATAGAACTGTTAAATTCTGGGACCTTGAAACTTTTGAGTTGATTGGTTCAGCTGGACCTGAG
|| | | | ||||| | || || | | ||||| || || ||| |||| | || | |||| | || | | || |||||||||||||| ||||| |||||||||||||||||||| || ||| | |||||||| | |||| |||||
--atttgacaggagagagacttcagtagtggatatttcttcttatggcattgttttccttactgttcatttgaatt-atgtttgtttctgcctatggtcttagGTTCAGCTGATAAGACTGTAAAATTCTGGGACCTTGAAACATTCGAGCTTATTGGTTCTGGTGGAACTGAG
upper sequence: Vv10s0071g01150.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S101_210V6.1 (Physcomitrella patens), 3'ss of exon 5
--ttatgttttatgctctgacttatcacacttttgttctgtcatctaaaattgtgttttatatggtttattttactttaactttggtcttg---tcctttcacagGTTCAGCTGATAGAACTGTTAAATTCTGGGACCTTGAAACTTTTGAGTTGATTGGTTCAGCTGGACCTGAG
|| |||| || || | ||| | || | | | | || |||| || | || ||| ||||||| || || | |||||| || || || || || || || | ||||| ||||| |||||||||||||| || |||||||||||
tggaatattttccactttg--tcgtcaaaattgaatcccggttcgctgtttggtcttttctagtacaagtaatagttt---tttggtcctggtttcatgatgtagGTTCTGCGGACAGGACAGTCAAGTTTTTTGACCTCGAAACATTTGAGTTGATTGGATCTGCTGGACCTGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaattgtgttttatatggtttattttactttaactttggtcttgtcctttcacagGTTCAGCTGATAGAACTGTTAAATTCTGGGACCTTGAAACTTTTGAGTTGATTGGTTCAGCTGGACCTGAG
ctttaac putative branch site (score: 3)
tcttgtcctttcac putative PPT
ttttatatggtttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttatgttttatgctctgacttatcacacttttgttctgtcatctaaaattgtgttttatatggtttattttactttaactttggtcttgtcctttcacagGTTCAGCTGATAGAACTGTTAAATTCTGGGACCTTGAAACTTTTGAGTTGATTGGTTCAGCTGGACCTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - tatgctc
- - - - - - - - - - -atcacac
- - - - - - - - - - - - - - - - - -ctgtcat
- - - - - - - - - - - - - - - - - - - - - - aaaattg