Sequence
atgc intronic sequence ATGC exonic sequence...taaatgctttctctcatgttgcttctaagaaaaatgcattgccatatgtaaattcaattcaacctgcttggttactaacttatctatatattatatccagAAATGGGGACACATATGCTGGAGAATACTTTGCAGACAAGATGCATGGGTTTGGAATTTATAATTTTGCCAATGGTCATCGGTATGAGGGAGCCTGGCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0021g01010.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G399484_T01 (Zea mays), 3'ss of exon 1
-taaatgctttctctcatgttgcttctaagaaaaatgcattgccatatgtaaattcaattca-acctgcttgg----ttactaacttatctatatattatatccagAAATGGGGACACATATGCTGGAGAATACTTTGCAGACAAGATGCATGGGTTTGGAATTTATAATTTTGCCAATGGTCATCGGTATGAGGGAGCCTGGCAT
| | || |||| || || | | ||||| ||| || |||| |||||| | || || || || | | | ||| | | | | || ||||| ||||| || |||||||| |||||||| || | |||||| || |||||||| || | ||||||||||| ||| | ||||||||||| ||||||
ttggcctggtcctgtcatatttgttacac-actgttgcat----ataagttaattaaattcacaactactaggagctttgattgatgttttatgaactttgtt-agGAATGGTGACACCTACGCTGGAGAGTACTTTGCTGATAGGATGCACGGCTTTGGAATCTACAGCTTTGCCAATGGCCATAGATATGAGGGAGCATGGCAT
upper sequence: Vv15s0021g01010.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G148180_T02 (Zea mays), 3'ss of exon 2
taaatgctttctctcatgttgcttctaagaaaaatgcattgccatatgtaaattcaattca-acctgcttgg----ttactaacttatctatatattatatccagAAATGGGGACACATATGCTGGAGAATACTTTGCAGACAAGATGCATGGGTTTGGAATTTATAATTTTGCCAATGGTCATCGGTATGAGGGAGCCTGGCAT
| ||| |||| || || | | ||||| ||| || || | ||||| | ||| | | ||| | | | | | | | | || ||||| ||||| || || ||||| |||||||| || | |||||| || |||||||| || | ||||||||||||||| | || |||||||| ||||||
tggcctagttcagtcatatttgttacatgctgt-tgcat----ataggttaaatagattcacaactgttaagagctttagttaatgttttgtgaacttctgttagGAATGGTGACACCTACGCGGGAGAGTACTTTGCTGATAGGATGCACGGCTTTGGAATCTACAGCTTTGCCAATGGTCATAGATACGAGGGAGCATGGCAT
upper sequence: Vv15s0021g01010.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G45460.1 (Glycine max), 3'ss of exon 2
--taaatgctttctctcatgttgcttctaagaaaaatgcattgccatatgtaaattcaattcaacctgcttggttactaacttatc-tatatattatatccagAAATGGGGACACATATGCTGGAGAATACTTTGCAGACAAGATGCATGGGTTTGGAATTTATAATTTTGCCAATGGTCATCGGTATGAGGGAGCCTGGCAT
| ||| | ||| | | | |||| | || ||| | | ||||| |||| || || | || || |||||||| || ||||| || || |||||||||||||||||||||||||| ||||| || ||| ||||||| ||||| ||||| ||||| ||||||||||||
cttgaattagaaatggagtgtctttgtcctttttctttgcctaccatgaaaagtttaaatgttgcatttttggtgg--aactaattacatctgtt-taattagAAATGGAGATACATACGCGGGTGAATACTTTGCAGACAAGATGCATGGTTTTGGCATATATCATTTTGCGAATGGCCATCGTTATGAAGGAGCCTGGCAT
upper sequence: Vv15s0021g01010.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA01G10850.1 (Glycine max), 3'ss of exon 2
------taaatgctttctctcatgttgcttctaagaaaaatgcattgccatatgtaaattcaattcaacctgcttggttactaacttatctatatattatatccagAAATGGGGACACATATGCTGGAGAATACTTTGCAGACAAGATGCATGGGTTTGGAATTTATAATTTTGCCAATGGTCATCGGTATGAGGGAGCCTGGCAT
| || | || | ||| ||| | || || ||| ||| | || | || ||| ||||| |||| || || || |||||||| || |||||||| || |||||||||||||||||||||||||| ||||| || ||| |||||| ||| | ||||| ||||| ||||||||||||
ttcttctgaagaataactataatggc-cttattgttaacttgaatt---ataaatgaaatgtctttgtcctttttggtgg--aactaattacatctttttaattagAAATGGAGATACATATGCGGGTGAATACTTTGCAGACAAGATGCATGGTTTTGGCATATATCGTTTTGCGAATTGCCATCGTTATGAAGGAGCCTGGCAT
upper sequence: Vv15s0021g01010.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA03G25510.1 (Glycine max), 3'ss of exon 1
---taaatgctttctctcatgttgcttctaagaaaaatgcattgccatatgtaaattcaattcaacctgcttggttactaacttatctatatattatatccagAAATGGGGACACATATGCTGGAGAATACTTTGCAGACAAGATGCATGGGTTTGGAATTTATAATTTTGCCAATGGTCATCGGTATGAGGGAGCCTGGCAT
||| || || | | | || | | | || | | | | ||||| |||| | | | || |||| |||||||| || ||||||||||| ||||||||||| || ||||||||||| ||||| | || | |||||| ||||| ||||| ||||| ||| ||||||||
ttttaattgaattacactggactttgagtggctgctttttctttgctcaccagtaagtgtttttatttttgttggaactaa-ttatttctgtttt-tatc-agAAATGGCGATACATATGCTGGCGAATACTTTGCGGATAAGATGCATGGATTTGGGGTATACAGTTTTGCTAATGGCCATCGTTATGAAGGATCCTGGCAT
upper sequence: Vv15s0021g01010.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S101_1V6.2 (Physcomitrella patens), 3'ss of exon 3
taaatgctttctctcatgt-tgcttctaag----aaaaatgcattgccatatgtaaattcaattcaacctgcttggttactaac----ttatctatatattatatccagAAATGGGGACACATATGCTGGAGAATACTTTGCAGACAAGATGCATGGGTTTGGAATTTATAATTTTGCCAATGGTCATCGGTATGAGGGAGCCTGGCAT
|||| || | || || ||| | || | || | | || ||| || || | || ||||| || | | | |||| ||||| || || ||||| ||||| || ||||| |||||||||||||||| || |||| || ||||||||||||||||| ||||| || | |||||
-------tttcgctgaagtatgtaaataaacattaggaagacggtgaga-gtacaatctcagtttcttttgaggatgcattagtcatgttatccatctgctttg-ccagGAATGGAGATACGTATGCCGGAGATTATTTTGCGGACAAGATGCATGGGTACGGTGTTTACAAGTTTGCCAATGGTCATCGCTATGAAGGCTCATGGCAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgtaaattcaattcaacctgcttggttactaacttatctatatattatatccagAAATGGGGACACATATGCTGGAGAATACTTTGCAGACAAGATGCATGGGTTTGGAATTTATAATTTTGCCAATGGTCATCGGTATGAGGGAGCCTGGCAT
tactaac putative branch site (score: 0)
ttactaacttatctat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taaatgctttctctcatgttgcttctaagaaaaatgcattgccatatgtaaattcaattcaacctgcttggttactaacttatctatatattatatccagAAATGGGGACACATATGCTGGAGAATACTTTGCAGACAAGATGCATGGGTTTGGAATTTATAATTTTGCCAATGGTCATCGGTATGAGGGAGCCTGGCAT
- - tgctttc
- - - - - - ctcatgt
- - - - - - - - - -tgcttct
- - - - - - - - - - - - - aagaaaa
- - - - - - - - - - - - - - - - - tgcattg
- - - - - - - - - - - - - - - - - - - - -ccatatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - caattca