Sequence
atgc intronic sequence ATGC exonic sequence...tcagaactctttgcaatttaatacaaaaattataaattaactagaacatgttgataaattatttgctacattgtgatttctttgttgttttcttctgcagGGGGTCTCTTGTGATCTGTTTGATGGATTTTGGTATGTTACTGCCTTGAACATTGGACCGGTCCATGACAATTCTCTGAGTTGTGCTCAAGAATTGGAAT
Basic information
species | Glycine max |
transcript | GLYMA10G34950.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G34950.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv01s0011g02800.t01 (Vitis vinifera), 3'ss of exon 1
tcagaactctttgcaatttaatacaaaaattataaattaactagaacatgttgataaattatt-tgcta-cattgtgatt---tctttgttgttttcttctgcagGGGGTCTCTTGTGATCTGTTTGATGGATTTTGGTATGTTACTGCCTTGAACATTGGACCGGTCCATGACAATTCTCTGAGTTGTGCTCAAGAATTGGAAT
| | || | | | || || || || | ||| ||| | | ||| ||||| ||| | ||| ||||| | ||||||||||||| |||||||||||||| | |||||| || |||||||| |||||||| ||||||||||| || || ||||| ||||| |||||| || | ||||||
-----attattgcttaatctctgaaagtcttgagcttttaccattacaatttggtttagtatcatgctaacatcctaattgtatcttttcaatcttcttctgcagGGAGTCTCTTGTGATCTCTATGATGGTTTCTGGTATGTCACTGCCTTAAACATTGGACCTGTTCAAGACAACTCTCTTGATTGTGCCCATAATGTGGAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acatgttgataaattatttgctacattgtgatttctttgttgttttcttctgcagGGGGTCTCTTGTGATCTGTTTGATGGATTTTGGTATGTTACTGCCTTGAACATTGGACCGGTCCATGACAATTCTCTGAGTTGTGCTCAAGAATTGGAAT
tgttgat putative branch site (score: 4)
tttctttgttgttttc putative PPT
ttgataaattattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcagaactctttgcaatttaatacaaaaattataaattaactagaacatgttgataaattatttgctacattgtgatttctttgttgttttcttctgcagGGGGTCTCTTGTGATCTGTTTGATGGATTTTGGTATGTTACTGCCTTGAACATTGGACCGGTCCATGACAATTCTCTGAGTTGTGCTCAAGAATTGGAAT
- - - - ctttgca
- - - - - - - - - - - acaaaaa
- - - - - - - - - - - - - - - - - - - - - - - catgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgctaca