Sequence
atgc intronic sequence ATGC exonic sequence...tcttgagcttatttcataggaactggatcttttgtgtaacttcatttctctccaccagttttaccgatataccaattttaaattataaatatttgtgtagGAGCATGCCAACCTCTGCTGCCCTGGATGTTGTTGCCAAACATCTGAATTTGAAATTTTTTGAGATATATTGCTCTTCAAT
Basic information
species | Glycine max |
transcript | GLYMA03G05150.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G05150.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G109383_T02 (Zea mays), 3'ss of exon 11
-----tcttgagcttatttcataggaactggatcttttgtgtaacttcatttctctccaccagttttaccgatataccaattttaaattataaatatttgtgtagGAGCATGCCAACCTCTGCTGCCCTGGATGTTGTTGCCAAACATCTGAATTTGAAATTTTTTGAGATATATTGCTCTTCAAT
|||| |||| | | || | |||| || | || | | |||| | | || ||| || ||| || | | | |||||||||||||| ||||||||||| ||||||||||| || || |||| | || || ||||||
tttcatcttccgcttgtat-gcagctgtccggtcttagatgca-tttgaaatttctctatgcactgaacac---tacttatgttattccattattgtaataacagGAGCATGCCAACATCTGCTGCCCTTGATGTTGTTGCAAAGAATTTGAACCTTAAGTTCTTTGAG-----------------
upper sequence: GLYMA03G05150.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G023289_T03 (Zea mays), 3'ss of exon 11
----tcttgagcttatttcataggaactggatcttttgtgtaacttcatttctctccaccagttttaccgatataccaattttaaattataaatatttgtgtagGAGCATGCCAACCTCTGCTGCCCTGGATGTTGTTGCCAAACATCTGAATTTGAAATTTTTTGAGATATATTGCTCTTCAAT
|| ||| | | || | || ||| || | || | | |||| | | | ||| | || || | | || |||||||||||||| || |||||||| ||||||||||| || || ||||| | || || ||||||
ttgatcccccacttgtat-gcagctatctgaccttagatgca-tttaaaatttctctat--gcactgataggctacttacgacaatctaatgttgtaaatgcagGAGCATGCCAACATCAGCTGCCCTTGATGTTGTTGCAAAGAATTTGAATCTCAAGTTCTTTGAG----------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctctccaccagttttaccgatataccaattttaaattataaatatttgtgtagGAGCATGCCAACCTCTGCTGCCCTGGATGTTGTTGCCAAACATCTGAATTTGAAATTTTTTGAGATATATTGCTCTTCAAT
ttttaccgatatacca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcttgagcttatttcataggaactggatcttttgtgtaacttcatttctctccaccagttttaccgatataccaattttaaattataaatatttgtgtagGAGCATGCCAACCTCTGCTGCCCTGGATGTTGTTGCCAAACATCTGAATTTGAAATTTTTTGAGATATATTGCTCTTCAAT
- - - - - - - - - - - - - - -ttttgtg