Sequence
atgc intronic sequence ATGC exonic sequence...tatgtggtatatttctgattttacataattatgccagtgtaaaagatatgtgaattaagctttgatgcttattacgttgtgttatatttcttactgtcagGTGTTTGATGAAGCTGACTTGCTTCTCTGTGGGAGCTTCCAGAATAAAGTAATCCGCTTGATAAACTTGCTCCGCTTTGATGAAAAACTCTTGTCTCGAT
Basic information
species | Glycine max |
transcript | GLYMA08G40250.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G40250.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G59990.1 (Arabidopsis thaliana), 3'ss of exon 3
tatgtggtatatttctgattttacataattatgccagtgtaaaagatatgtgaattaagctttgatgcttattacgttgtgt-tatatttcttactgtcagGTGTTTGATGAAGCTGACTTGCTTCTCTGTGGGAGCTTCCAGAATAAAGTAATCCGCTTGATAAACTTGCTCCGCTTTGATGAAAAACTCTTGTCTCGAT
|| || | | ||||| | | | ||| || | ||| | | || || | | | || || |||||| |||||||||||||| ||||||| ||||| |||||||||||| | | ||||| ||||||| |||| || || ||||| |||| ||||||| |
----------------------gtatggtt-ttcttgtgtaga-gttgtgttgtttgga-tcacttgcaggtcgccttttgaatgtttggattgctttcagGTCTTTGATGAAGCTGATATGCTTCTGTGTGGAAGCTTCCAGAATCAGATTATCCGTCTGATAAATATGCTGCGTTTCGATGAGAAACAGGTGTCTCGTT
upper sequence: GLYMA08G40250.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv01s0026g00640.t01 (Vitis vinifera), 3'ss of exon 3
tatgtggtatatttctgattttacataattatgccagtgtaaaagatatgtgaattaagctttgatgcttattacgttgtgttatatttcttactgtcagGTGTTTGATGAAGCTGACTTGCTTCTCTGTGGGAGCTTCCAGAATAAAGTAATCCGCTTGATAAACTTGCTCCGCTTTGATGAAAAACTCTTGTCTCGAT
||| |||| ||| || ||| || | || || | |||| || || | | || | || |||| | | | || ||||||||||| ||||| || ||||||| ||||||||||| |||||| |||| ||||| | ||| | |||| || ||||||||||| | ||||||||
------gtaaattt----tttctcagaatcatccatgtttatt---ttggtgatttgagaaatcacag-----acctagt-ttatttataacaatggcagGTGTTTGACGAAGCAGATATGCTTCTTTGTGGGAGCTTTCAGAATCAAGTCATCCGTCTCATAGATATGCTTCGTTTTGATGAAAAGATATTGTCTCGCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatgtgaattaagctttgatgcttattacgttgtgttatatttcttactgtcagGTGTTTGATGAAGCTGACTTGCTTCTCTGTGGGAGCTTCCAGAATAAAGTAATCCGCTTGATAAACTTGCTCCGCTTTGATGAAAAACTCTTGTCTCGAT
ttcttac putative branch site (score: 2)
tttcttact CT-rich tract
tgttatatttctta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatgtggtatatttctgattttacataattatgccagtgtaaaagatatgtgaattaagctttgatgcttattacgttgtgttatatttcttactgtcagGTGTTTGATGAAGCTGACTTGCTTCTCTGTGGGAGCTTCCAGAATAAAGTAATCCGCTTGATAAACTTGCTCCGCTTTGATGAAAAACTCTTGTCTCGAT
- tgtggta
- - - - - - - - - - - - - - -tatgcca
- - - - - - - - - - - - - - - - - - - - aaaagata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatgct