Sequence
atgc intronic sequence ATGC exonic sequence...atttagcttaggtgcaaatttatcaattgacggacattaacatctgtgtagtgacttagctttgatataattttgttgattcttcttttgacaatcacagGATATTACCTTACTAACTCATCATCTGATCCTGGAGCTGGTGACATTCTAATGGGATTTTTGGGATCTGTTATTCTCTCATTTGCCTTCTCTATGTTCAA
Basic information
species | Glycine max |
transcript | GLYMA09G34440.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G34440.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G32080.1 (Arabidopsis thaliana), 3'ss of exon 4
----atttagcttaggtgcaaatttatcaattgacggacattaacatctgtgtagtgacttagctttgatataattttgttgattcttcttttgacaatcacagGATATTACCTTACTAACTCATCATCTGATCCTGGAGCTGGTGACATTCTAATGGGATTTTTGGGATCTGTTATTCTCTCATTTGCCTTCTCTATGTTCAA
| ||| ||| | || | | || || || | | || || | | | | ||||||| | | ||||| | | |||||| | |||||||| || | |||| |||||||| ||||||||||| ||||||| ||| | || ||||| |||||||| || || ||||| ||||||||
gtaaagttaccttcactatgaaagaaactatagagaaaccct--tttttgacctaaaacagaaagtaaaagca-ttttgttaactgctcttt-aatggtgacagGAAACTACCTTACCAAAGTAGCATCAGATCCTGGTGCTGGTGACATCTTAATGGGTTTTCTTGGCTCTGTCATTCTCTCTTTCGCTTTCTCCATGTTCAA
upper sequence: GLYMA09G34440.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv08s0056g01690.t01 (Vitis vinifera), 3'ss of exon 4
atttagcttaggtgcaaatttatcaattgacggaca--ttaacatctgtgtagtgacttagctttgatataattttgttgattcttcttttgacaatcacagGATATTACCTTACTAACTCATCATCTGATCCTGGAGCTGGTGACATTCTAATGGGATTTTTGGGATCTGTTATTCTCTCATTTGCCTTCTCTATGTTCAA
|| || | ||| | || | | ||| || | || | | ||| || | ||| || |||||||| || | | | ||||||||||||||| || |||| ||| |||||||||||||||||||||||||||||||||| ||||||||||||||||||||||| ||||| ||||||||
gattcctttgcataattgtttggtatttttcttttaatttagaatatacatatt--tcttgctcgtatgtttatttattaattcttctgttaatatgaatagGATATTACCTTACGAAGGCATCTTCTAATCCTGGAGCTGGTGACATTCTAATGGGATTTTTAGGATCTGTTATTCTCTCATTTGCTTTCTCCATGTTCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgtagtgacttagctttgatataattttgttgattcttcttttgacaatcacagGATATTACCTTACTAACTCATCATCTGATCCTGGAGCTGGTGACATTCTAATGGGATTTTTGGGATCTGTTATTCTCTCATTTGCCTTCTCTATGTTCAA
ttttgac putative branch site (score: 3)
tttgatataattttgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atttagcttaggtgcaaatttatcaattgacggacattaacatctgtgtagtgacttagctttgatataattttgttgattcttcttttgacaatcacagGATATTACCTTACTAACTCATCATCTGATCCTGGAGCTGGTGACATTCTAATGGGATTTTTGGGATCTGTTATTCTCTCATTTGCCTTCTCTATGTTCAA
- - - - -aggtgca
- - - - - - - - - - - - - - - - - - - - - - - tgtagtg