Sequence
atgc intronic sequence ATGC exonic sequence...ttgaatactgtttatttttccatttataggaagtttctatgcctcttgactaaagtgttaccttgtaatatctttgttccttgttcttattgctgtttagGACGACATCTTGATGACACATGGGTGGCATACATTGGCAATGATTTCCGAAGAATGTTGAAATGGCAGACAGTCCATTCAGGCATTCCAAGTGGGAGATT
Basic information
species | Glycine max |
transcript | GLYMA08G23670.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G23670.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv09s0054g00610.t01 (Vitis vinifera), 3'ss of exon 1
----ttgaatactgtttatttttccatttataggaagtttctatgcctcttgactaaagtgttaccttgtaatatctttgttccttgttcttattgctgtttagGACGACATCTTGATGACACATGGGTGGCATACATTGGCAATGATTTCCGAAGAATGTTGAAATGGCAGACAGTCCATTCAGGCATTCCAAGTGGGAGATT
| | || || | ||| || || || | || | | ||| | | || | |||| || | ||||| || | ||||||||| ||| ||||||||||||||||||| |||||||| |||||||| || || ||||| | ||| ||| | |||||||||||||||||| | ||
ctggatcagtaatggaaaatttaggatcta---atgcttaatggttttccatgattatgtgccaatgtctatggtgtttgatctct-ttcttgtttcaatttagGACGTCATATTGATGACACATGGGTGGCGTACATTGGTAATGATTTTCGGAGGATGTTAAGGTGGGAGAAGATTACTTCAGGCATTCCAAGTGGCCGGTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgactaaagtgttaccttgtaatatctttgttccttgttcttattgctgtttagGACGACATCTTGATGACACATGGGTGGCATACATTGGCAATGATTTCCGAAGAATGTTGAAATGGCAGACAGTCCATTCAGGCATTCCAAGTGGGAGATT
gactaaa putative branch site (score: 2)
tctttgttccttgttc putative PPT
taatatcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgaatactgtttatttttccatttataggaagtttctatgcctcttgactaaagtgttaccttgtaatatctttgttccttgttcttattgctgtttagGACGACATCTTGATGACACATGGGTGGCATACATTGGCAATGATTTCCGAAGAATGTTGAAATGGCAGACAGTCCATTCAGGCATTCCAAGTGGGAGATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - -ccattta
- - - - - - - - - - - - - - - - - - ctatgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttacc