Sequence
atgc intronic sequence ATGC exonic sequence...ttttagtgttgctaccactgcagatctctttgtcaattcaaagtccatccctttctttgcaaccctcttcctatatctaaaggatgcatctgttttccagGTCATCGGTGCTATGGGTGGATTTGCATACATCATGGACAAAGATGGGGCTTTCAGGAATTCGTTCAGTGATGGTTGGGATCGAATATTGTCCAGGCATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g04730.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G12750.1 (Glycine max), 3'ss of exon 4
ttttagtgttgctaccactgcagatctctttgtca---att--caaagtccatccctttctttgcaaccctcttcctatatctaaaggatgcatctgttttccagGTCATCGGTGCTATGGGTGGATTTGCATACATCATGGACAAAGATGGGGCTTTCAGGAATTCGTTCAGTGATGGTTGGGATCGAATATTGTCCAGGCATC
||| ||| || || | || || | |||| || ||| || | | | ||| || | || | ||| ||||| | |||||||||| || | ||||| ||||| |||||||||||||||||||||||||| | |||||||| ||||| ||||||||||||| | ||| |||| |||||||
attttgtgatg-tatc--tgtctatttgtttggcatatattgtcatattgtgtaatgttcatt-taggactttatcta-atctatgttctattgaatttttccagGTGATTGCAGCTATTGGTGGCTTTGCATACATCATGGACAAAGATGGTTCCTTCAGGAACTCGTTTGATGATGGTTGGGATAGGATACTGTCAAGGCATC
upper sequence: Vv11s0016g04730.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G08220.1 (Glycine max), 3'ss of exon 4
ttttagtgttgc--taccactgcagatctctttgtcaattcaaagtccatccctttctttgcaaccctcttcctatatctaaaggatgcatctg--ttttccagGTCATCGGTGCTATGGGTGGATTTGCATACATCATGGACAAAGATGGGGCTTTCAGGAATTCGTTCAGTGATGGTTGGGATCGAATATTGTCCAGGCATC
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--ctgattttgtgatgcatctgtctatttgtttggca-tatattgtc-atatggtgtaatgtttatttacgagtatatctaatctgttttattgatttttccagGTGATTGCAGCTATTGGTGGCTTTTCATACATCATGGACAAAGATGGTTCCTTCAGGAACTCATTTGATGATGGTTGGGATAGGATACTGTCAAGGCATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catccctttctttgcaaccctcttcctatatctaaaggatgcatctgttttccagGTCATCGGTGCTATGGGTGGATTTGCATACATCATGGACAAAGATGGGGCTTTCAGGAATTCGTTCAGTGATGGTTGGGATCGAATATTGTCCAGGCATC
atctaaa putative branch site (score: 3)
tctgttttcc putative PPT
tatatctaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttagtgttgctaccactgcagatctctttgtcaattcaaagtccatccctttctttgcaaccctcttcctatatctaaaggatgcatctgttttccagGTCATCGGTGCTATGGGTGGATTTGCATACATCATGGACAAAGATGGGGCTTTCAGGAATTCGTTCAGTGATGGTTGGGATCGAATATTGTCCAGGCATC
- - - - ttgctac
- - - - - - - -cactgca
- - - - - - - - - - - - - - - - -caattca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggatgca