Sequence
atgc intronic sequence ATGC exonic sequencegtatatactaagtttataactctatattactccacgatgtctcatgcgttctctattgacacttatttctcacacagCTTTTTCAAGCGGGTGTGCAAAAAGATAACAGCTCTGACCTAGCTTTTGCTGTTGATATTTGGAGTTTGGGTTGTACAATTATTGAAATGTTCACCGGGA
Basic information
species | Glycine max |
transcript | GLYMA01G39070.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G39070.1 (Glycine max), 3'ss of exon 9
lower sequence: AT5G66850.1 (Arabidopsis thaliana), 3'ss of exon 7
-------gtatatactaagtttataactctatattactccacgatgtct-catgcgt---tctctattgacactta---tttctcacacagCTTTTTCAAGCGGGTGTGCAAAAAGATAACAGCTCTGACCTAGCTTTTGCTGTTGATATTTGGAGTTTGGGTTGTACAATTATTGAAATGTTCACCGGGA
| | | | || || | | |||| | | || || | | | || | | | || || ||||||||||| | ||||| | |||||||||||| || | | || || ||||||||||||||||| |||||||| || |||||||| ||||| |||||||| ||||
gtggtcattgttctatgatctttgaaataaactagactctataaaccctatatatatatatatatactaatatatacgtttactcacacagCTCATGCAAGCTGTGATGCAAAAAGATAGCAACCCAGATCTGGCTTTTGCTGTTGATATATGGAGTTTAGGATGTACAATCATTGAGATGTTCACTGGGA
upper sequence: GLYMA01G39070.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv00s1194g00010.t01 (Vitis vinifera), 3'ss of exon 6
gtatatactaagtttataactctatattactccacgatgtctcatg-cgttctctatt--gacac--ttatttctcacacagCTTTTTCAAGCGGGTGTGCAAAAAGATAACAGCTCTGACCTAGCTTTTGCTGTTGATATTTGGAGTTTGGGTTGTACAATTATTGAAATGTTCACCGGGA
| ||| ||| |||| | | || ||| | ||| ||| |||| || | | || ||||| | ||||| | |||| |||||| | || ||||| || || |||||||||||||| ||||||||||||||||| |||||||||||| | | || |
-------gtgtgttataggtgctacattaattctttataatctatggcattcctaattctgacatcattgtctttctggcagCTCATGCAAGCTGTGATGCAGAAAGATCATAGTTCTGATCTTGCCTTTGCTGTTGATATATGGAGTTTGGGTTGTACTATTATTGAAATGCTGAATGGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatattactccacgatgtctcatgcgttctctattgacacttatttctcacacagCTTTTTCAAGCGGGTGTGCAAAAAGATAACAGCTCTGACCTAGCTTTTGCTGTTGATATTTGGAGTTTGGGTTGTACAATTATTGAAATGTTCACCGGGA
ttctcac putative branch site (score: 2)
cttatttctc CT-rich tract
acttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatatactaagtttataactctatattactccacgatgtctcatgcgttctctattgacacttatttctcacacagCTTTTTCAAGCGGGTGTGCAAAAAGATAACAGCTCTGACCTAGCTTTTGCTGTTGATATTTGGAGTTTGGGTTGTACAATTATTGAAATGTTCACCGGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG