Sequence
atgc intronic sequence ATGC exonic sequence...atctttttgtttgcttaaacatagcaggacttgtttcaaacattcttcgttttactgtatatgaccaaatgcaatttatagatggaattgtgtttattagGAGCTCATTGAAAATCTCATCAAGGGTGAATTGCCAAAGAATGAATATTCCTGTATAAATGAGCCAAGTCCTAGTAATGCCCGAGGTTCTGTTAGAATCA
Basic information
species | Glycine max |
transcript | GLYMA01G34340.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G34340.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv15s0045g00060.t01 (Vitis vinifera), 3'ss of exon 10
--------atctttttgtttgcttaaacatagcaggacttgtttcaaacattcttcgttttactgtatatgaccaaatgcaatttatagatggaattgtgtttattagGAGCTCATTGAAAATCTCATCAAGGGTGAATTGCCAAAGAATGAATATTCCTGTATAAATGAGCCAAGTCCTAGTAATGCCCGAGGTTCTGTTAGAATCA
||| || ||| |||| || | | ||| | | || | | | | || ||| | || ||| ||| | ||||| ||||||| |||||||| |||| || |||||||| || |||||||||||| ||||| ||||| |||||||| | | || | ||| | |
aaaagttactctcttattttacttatccagataactgcttctcttaa------tatgctatgagttaaatgggtggtagtaagttac--atgctgtgtcatttatcagGAGCTGATTGAAAAACTCAATAAAGGTGAATTACCCAAGAATGAATATCTGTGTATGAATGAACCAAGTCCACCTGTCCCACGGAGCACTGATGGTGCAT
upper sequence: GLYMA01G34340.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv15s0048g00970.t01 (Vitis vinifera), 3'ss of exon 16
--------atctttttgtttgcttaaacatagcaggacttgtttcaaacattcttcgttttactgtatatgaccaaatgcaatttatagatggaattgtgtttattagGAGCTCATTGAAAATCTCATCAAGGGTGAATTGCCAAAGAATGAATATTCCTGTATAAATGAGCCAAGTCCTAGTAATGCCCGAGGTTCTGTTAGAATCA
||| || ||| |||| || | | ||| | | || | | | || || ||| | || ||| | | | | |||| ||||||| |||||||| |||| || |||||||| || |||||||||||| ||||| ||||| |||||||| | | || | ||| | |
aaaagttactctcttattttacttatccagataactgcttctcttaa------tatgctataagttaaatgggtggtagtaagttacacgctgtgtcat--ttatcagGAGCTGATTGAAAAACTCAATAAAGGTGAATTACCCAAGAATGAATATCTGTGTATGAATGAACCAAGTCCACCTGTCCCACGGAGCACTGATGGTGCAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcgttttactgtatatgaccaaatgcaatttatagatggaattgtgtttattagGAGCTCATTGAAAATCTCATCAAGGGTGAATTGCCAAAGAATGAATATTCCTGTATAAATGAGCCAAGTCCTAGTAATGCCCGAGGTTCTGTTAGAATCA
aaatgcaatttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atctttttgtttgcttaaacatagcaggacttgtttcaaacattcttcgttttactgtatatgaccaaatgcaatttatagatggaattgtgtttattagGAGCTCATTGAAAATCTCATCAAGGGTGAATTGCCAAAGAATGAATATTCCTGTATAAATGAGCCAAGTCCTAGTAATGCCCGAGGTTCTGTTAGAATCA
- - - -tgtttgc
- - - - - - - - - - - -gcaggac
- - - - - - - - - - - - - - - - - -tcaaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aatgcaa