Sequence
atgc intronic sequence ATGC exonic sequence...taaaatttattttttattgggtttatagtttttattgtattgcattaattggtgattccaataattgtttacgggatatttctgtctttattggttccagGTGAGGGAGAGGTGTAAAAAAGAGTGGACCATGTTTCGAGTTCGCATGACCAATGCCGAAAAAACATATTACAAGGAGATGGGAATTAATCCTACCAATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g02780.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G14040.1 (Glycine max), 3'ss of exon 14
---taaaatttattttttattgggtttatagtttttattgtattgcattaattggtgattccaataattgtttacgggatatttctgtctt-tattggttccagGTGAGGGAGAGGTGTAAAAAAGAGTGGACCATGTTTCGAGTTCGCATGACCAATGCCGAAAAAACATATTACAAGGAGATGGGAATTAATCCTACCAATT
| || ||| || | ||| | || | ||||| | | | || || ||| | | | | || | | | | | | | ||||| |||||||||||||||||||||| |||||||| ||||| | ||| || | ||||| ||| | ||||||||| || ||||| || ||||
atcaagaagctatattacaatggat--ggagctgttattttttgcaaatactt--tgactactaaatatgcatgcatgttgatgaaccatggtgttggtggcagGTGAGGGAGAGGTGTAAAAGGGAGTGGACAATGTTCCAGAGTCGGTTGGCAAATGCAGAAGACGCATATTACAGGGCCGTGGGAGGGGATATGTTTAATT
upper sequence: Vv17s0000g02780.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA18G01710.1 (Glycine max), 3'ss of exon 14
taaaatttatttttta--ttgggtttatagtttttattgtattgcattaattggtgattccaataattgtttacgggatatttctgtctttattggttccagGTGAGGGAGAGGTGTAAAAAAGAGTGGACCATGTTTCGAGTTCGCATGACCAATGCCGAAAAAACATATTACAAGGAGATGGGAATTAATCCTACCAATT
|| | || | | ||| || | | | | ||| | | || ||| |||| | | || || || || | ||||||||||| |||||| ||| |||||||||||||| | ||| || | ||||||||||| | ||||||||| ||||||| | || | | ||||
--aagtctaatgaagaggttgtgtgtgttataatggaagtagtctaaatgttatgtattttgataaagaaatttgttgatgttaaaatgttgtttgtgctagGTGAGGGAGCGGTGTAGAAAGGAGTGGACCATGTTCCAGAGTCGGTTGGCAAATGCCGAAAACGCGTATTACAAGTCCATGGGAACTGATACATCTAATT
upper sequence: Vv17s0000g02780.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G37770.1 (Glycine max), 3'ss of exon 14
--------------------------------------------------taaa--atttatttt--ttattgggtttatagtttttattgtattgcattaattggtgattccaataattgtttacgggatat-------ttctgtctttattggttccagGTGAGGGAGAGGTGTAAAAAAGAGTGGACCATGTTTCGAGTTCGCATGACCAATGCCGAAAAAACATATTACAAGGAGATGGGAATTAATCCTACCAATT
|| | |||| |||| | | | |||| || | | ||| | |||||| || || ||| | | | || | ||| || ||||| | ||||||||||| |||||| ||| |||||||||||||| | ||| || | ||||| ||| | | ||| |||| || |||||| || | | ||||
gtatgttttacttgttcaatattcttaatctttattacattgtaaactattagactatttgttttgatcacttttcttatgattgtagat-tatggtattaatgaagaatctgtatt-ttgataatgaaatttgttgatgttcaaatgttgttggtgctagGTGAGGGAGCGGTGTAGAAAGGAGTGGACCATGTTCCAGAGTCGGTTGGCAAATGCTGAATACGCGTATCACAACTCCATTGGAATTGATACATCTAATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taattggtgattccaataattgtttacgggatatttctgtctttattggttccagGTGAGGGAGAGGTGTAAAAAAGAGTGGACCATGTTTCGAGTTCGCATGACCAATGCCGAAAAAACATATTACAAGGAGATGGGAATTAATCCTACCAATT
cattaat putative branch site (score: 3)
tttctgtctttatt putative PPT
aataattgttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taaaatttattttttattgggtttatagtttttattgtattgcattaattggtgattccaataattgtttacgggatatttctgtctttattggttccagGTGAGGGAGAGGTGTAAAAAAGAGTGGACCATGTTTCGAGTTCGCATGACCAATGCCGAAAAAACATATTACAAGGAGATGGGAATTAATCCTACCAATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - -tggtgat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccaataa