Sequence
atgc intronic sequence ATGC exonic sequencegttcgttcctcacttttattcatctaggaatttgatttctgtttcttgtctttttgattgtttgtgttgtgggaatggtttcttgcgggaaatgcagGAAACTTTTGCTGAGTACACGGCGAGAACAGCTTTTGAGCGGCCTTTACTGAGTGGGGTGGCCTATGCACAAAGAGTGGCTTATTCAGAGAGGGAGAGAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g06190.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA07G27540.1 (Glycine max), 3'ss of exon 1
------------------------------------------------------------------gttcgttcctcacttttattcatctaggaatttgatttctgtttcttgtctttttgattgtttgtgttgtggga-------atggtttcttgcgggaaatgcagGAAACTTTTGCTGAGTACACGGCGAGAACAGCTTTTGAGCGGCCTTTACTGAGTGGGGTGGCCTATGCACAAAGAGTGGCTTATTCAGAGAGGGAGAGAT
||| | | || | ||| ||| | | | ||| | | ||||| | | | || || || || ||||||| |||||||||||||| || | ||||| ||||| ||||| ||||||||||| ||||||||||| |||||||| | | | || |||||||||||||
gttagagcttgatcttccactttaatcttgatttgatacaagctaagcatgatattatatgtaatggtttgaaagaaatgaaatgctatttgggattttcacactt-ctacttattgctcaaattgtgtaaataactaaatatctccatccattgttcataataaaatagGAAACCTTTGCTGAGTACACTGCCCGGACAGCATTTGAACGGCCGTTACTGAGTGGTGTGGCCTATGCGCAAAGAGTTGTTAACTCTGAGAGGGAGAGAT
upper sequence: Vv01s0011g06190.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G05370.1 (Glycine max), 3'ss of exon 1
---------------------------------------------------------------------------------------gttcgttcctcacttttattcatctaggaatttgatttctgtttcttgtctttttgattgtt-tgtgttgtgggaatggtttcttgcgggaaatgcagGAAACTTTTGCTGAGTACACGGCGAGAACAGCTTTTGAGCGGCCTTTACTGAGTGGGGTGGCCTATGCACAAAGAGTGGCTTATTCAGAGAGGGAGAGAT
| | | ||| || | |||| | | || || | | |||| || | | | || || ||| |||| |||||||| ||||| ||||| || || || ||||| ||||| ||||| ||||| |||||||| ||||||||||||||||| | | | ||||||||||| | ||
gtttgtttgtgcttcatcttccccattctgctttggatttggaactagttatggaatgttgttgggtttaattttttaatttatgatatctgcattatatgtttctttctaatctaattgtgctgtttttctttctactccagatttttgtatatcttgactattgttcattgctcat----cagGAAACCTTTGCAGAGTATACAGCCAGGACAGCATTTGAACGGCCATTACTCAGTGGGGTAGCCTATGCACAAAGAGTAGTTAACTCAGAGAGGGAAACAT
upper sequence: Vv01s0011g06190.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G09550.1 (Glycine max), 3'ss of exon 1
gttcgttcctcacttttattcatc-taggaatttgatttctgttt---cttgtctttttgattgtttgtgttgtgggaatggtttcttgcgggaaat---gcagGAAACTTTTGCTGAGTACACGGCGAGAACAGCTTTTGAGCGGCCTTTACTGAGTGGGGTGGCCTATGCACAAAGAGTGGCTTATTCAGAGAGGGAGAGAT
|| | |||||||| | || | |||| | | | | || | ||| ||| | || || | ||| ||| ||||||| ||||||||||| || || || || || ||||| |||| || |||||||| |||||||||||||||||||| | | | || |||||||||||||
----ttttcacacttttacttattgttcaaattgtgtaaataactaaatatctccatccatttgcatgtatcttgactattagtcattgttcataataaaatagGAAACCTTTGCTGAGTATACAGCCAGGACGGCCTTTGAAAGGCCATTGCTGAGTGGTGTGGCCTATGCACAAAGAGTTGTTAACTCTGAGAGGGAGAGAT
upper sequence: Vv01s0011g06190.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA05G34310.1 (Glycine max), 3'ss of exon 1
-----------------------------------------------------------------gttcgttcctcacttttattcatc-taggaatttgatttctgtttcttgtctttttgatt--gtttgtgt-tgtgggaatggtttcttgcgggaaatgcagGAAACTTTTGCTGAGTACACGGCGAGAACAGCTTTTGAGCGGCCTTTACTGAGTGGGGTGGCCTATGCACAAAGAGTGGCTTATTCAGAGAGGGAGAGAT
|| | || | | |||| || | | | || | | | ||| ||| | | ||| ||| | | | || | | || |||||||| ||||| ||||| || || | ||||| ||||| || || ||||| |||||||||||||||||||||||||| | | | |||||||||| | ||
gtttgtacttgatcttcccattctgctttggatttggaactagttagggaatgttgggtataattttttatatttctggtatcagcatcatatgcttctaatctaattgtgctgtttttctactcagatttttgtatatcttgactattgttcattgctcat-cagGAAACCTTTGCAGAGTATACAGCCCGGACAGCATTTGAACGACCATTACTCAGTGGGGTGGCCTATGCACAAAGAGTAGTTAACTCAGAGAGGGGAACAT
upper sequence: Vv01s0011g06190.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT2G01830.1 (Arabidopsis thaliana), 3'ss of exon 2
---------------------------------------------------------------------------------gttcgttcctcacttttattcatctaggaatttgatttctgtttctt-----gtctttttgattgtttgtgttgtgggaatggtttcttgcgggaaatgcagGAAACTTTTGCTGAGTACACGGCGAGAACAGCTTTTGAGCGGCCTTTACTGAGTGGGGTGGCCTATGCACAAAGAGTGGCTTATTCAGAGAGGGAGAGAT
||| | | |||| || | || | |||| || || | | ||| |||| || | |||||| | || ||||||| || ||||| ||||||||||| |||||||| |||||| | || || || ||||| ||||| ||||| ||| ||| | ||| |||||||||| |
gtcagtgtgtgctttattaaaagctcaaagctttggtgaaatttttgattcataaatgcaaagttgactttttttggaaccagaagtttttgaaatttactcttttatg--tttggttattgagtaaatgaagggaaatttaggcctttgctttactc-attggtttgtggctaattttgcagGAGACATTTGCGGAGTACACGGCAAGAACAGCATTTGAGAGACCGTTGCTAAGTGGAGTGGCTTATGCTGAAAAAGTTGTGAATTTTGAGAGGGAGATGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcttgtctttttgattgtttgtgttgtgggaatggtttcttgcgggaaatgcagGAAACTTTTGCTGAGTACACGGCGAGAACAGCTTTTGAGCGGCCTTTACTGAGTGGGGTGGCCTATGCACAAAGAGTGGCTTATTCAGAGAGGGAGAGAT
ttttgat putative branch site (score: 4)
tttttgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcgttcctcacttttattcatctaggaatttgatttctgtttcttgtctttttgattgtttgtgttgtgggaatggtttcttgcgggaaatgcagGAAACTTTTGCTGAGTACACGGCGAGAACAGCTTTTGAGCGGCCTTTACTGAGTGGGGTGGCCTATGCACAAAGAGTGGCTTATTCAGAGAGGGAGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG