Sequence
atgc intronic sequence ATGC exonic sequence...ttaaagactttggaagtgtagtatggcatatccatagctgaatacttatgcttacatattcagacataacatattgacaatctctgatggtaaaatgcagCTAATAAAACTAAATCTACAGCCTGATGCAAAAGGTTCTTATGTGGAAGTATTGGAAAGGTATGTCAATTTGGGGCCTATTGTTGACTTCTGTGTGGTAG
Basic information
species | Glycine max |
transcript | GLYMA08G13680.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G13680.1 (Glycine max), 3'ss of exon 11
lower sequence: AT4G21100.1 (Arabidopsis thaliana), 3'ss of exon 11
----------------------------------------------------------------------------------------ttaaagactttggaagtgtagtatggcatatccatagctgaatacttatgcttacatattcagacataac---atattgacaatctctgatggtaaaatgcagCTAATAAAACTAAATCTACAGCCTGATGCAAAAGGTTCTTATGTGGAAGTATTGGAAAGGTATGTCAATTTGGGGCCTATTGTTGACTTCTGTGTGGTAG
|| || | |||| | ||| | || | || || |||| | || | | | || || | | | | | ||||||| || || ||||| || || || ||||||||||| || ||||| ||| | || |||| ||||||||| |||||||||||||| || || ||||| || |
gtacgctaggattgaataagtttctcattacgtgtttgaaagatatttttcttgaagaatgtaaacttatatagttctatggttaccactatcctagttatatgtgtttcaattgttatttttcttcgagttctaataaatacaagctttgaagcatccaaacgttttcattttttactttcttattgcagCTTATTAAGCTAAACCTGCAACCGGATGCAAAAGGGTCATATGTAGAAATTTTAGAAAAGTATGTCAACTTGGGGCCTATTGTCGATTTTTGTGTAGTTG
upper sequence: GLYMA08G13680.1 (Glycine max), 3'ss of exon 11
lower sequence: AT4G05420.1 (Arabidopsis thaliana), 3'ss of exon 11
ttaaagactttggaagtgtagtatggcatatccatagctgaatacttatgcttacatattcagacataacatattgacaatctctgatggtaaaat-gcagCTAATAAAACTAAATCTACAGCCTGATGCAAAAGGTTCTTATGTGGAAGTATTGGAAAGGTATGTCAATTTGGGGCCTATTGTTGACTTCTGTGTGGTAG
| | || || || | | | | ||| | || | | || ||| | | | || | || | | ||| ||||||| |||| || |||||||| |||||||||||||| || ||||| ||||| |||||||||||| |||| |||||||||||||| ||||| ||||| || |
-agcataaattcaaaagataattttatttccttctctctggcttctaagaaaagttaaatcgaccatctgagtgtttccatgtttggttttctaattgcagCTAGTAAAGCTGAATCTACACCCTGATGCAAAAGGCTCATATGTAGAAGTCTTGGAAAGGTATATCAACTTGGGGCCTATTGTCGACTTTTGTGTAGTTG
upper sequence: GLYMA08G13680.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 11
-----ttaaagactttggaagtgtagtatggcatatccatagctgaatacttatgcttacatattcagacataacatattgacaatctctgatggtaaaatgcagCTAATAAAACTAAATCTACAGCCTGATGCAAAAGGTTCTTATGTGGAAGTATTGGAAAGGTATGTCAATTTGGGGCCTATTGTTGACTTCTGTGTGGTAG
||| |||| || || ||| ||||| | | ||| | | | || || || | | | ||| | | ||||| |||||||| ||||| || ||||||| |||||||| |||||||| |||||||| || || || |||||||||||| |||| || ||||||||||||||||||||||
tttctttattaacttatgatgt----tatt-catatttctccattaattcattttagtattgtctctgaattgaatctctaacattacataatggtgccatgcagCTCATAAAGATACATCTACAACCTGATGCCAAAGGTTCATATGTGGAGGTTTTAGAGAGGTATGTCAATCTGGGTCCAATTGTTGACTTCTGTGTGGTAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatgcttacatattcagacataacatattgacaatctctgatggtaaaatgcagCTAATAAAACTAAATCTACAGCCTGATGCAAAAGGTTCTTATGTGGAAGTATTGGAAAGGTATGTCAATTTGGGGCCTATTGTTGACTTCTGTGTGGTAG
ataacatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttaaagactttggaagtgtagtatggcatatccatagctgaatacttatgcttacatattcagacataacatattgacaatctctgatggtaaaatgcagCTAATAAAACTAAATCTACAGCCTGATGCAAAAGGTTCTTATGTGGAAGTATTGGAAAGGTATGTCAATTTGGGGCCTATTGTTGACTTCTGTGTGGTAG
- - -gactttg
- - - - - - - - - - - - - - - - - -agctgaa
- - - - - - - - - - - - - - - - - - - - - - - - tgcttac