Sequence
atgc intronic sequence ATGC exonic sequence...tgtcaaaccaatgtttgaatctccgttaaaaaggtgtttacatatagtatctgacagtgtctcgaaacattattgattcaaactttcttctaatttgcagGAAAACTAGGATATGGCTAGGAACTTTTGAAACTGCTGAGGATGCAGCTAGAGCCTATGATGAAGCAGCAAGGCTAATGTGTGGCACAAGAGCAAGAACT
Basic information
species | Glycine max |
transcript | GLYMA04G06690.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G06690.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv09s0002g09120.t01 (Vitis vinifera), 3'ss of exon 1
--------------------------------tgtcaaac--caatgttt-----gaatc--tccgttaaaaaggtgtt-tacatatagtatctgacagtgtctcgaaacatta-ttgattcaaactttcttctaatttgcagGAAAACTAGGATATGGCTAGGAACTTTTGAAACTGCTGAGGATGCAGCTAGAGCCTATGATGAAGCAGCAAGGCTAATGTGTGGCACAAGAGCAAGAACT
||| | || ||| | | ||| | | || | ||||||| | | | || | || || ||| | |||| | | | | | || | | |||||| ||||| ||||||||||| || || ||||| |||||||| || || |||| |||||||||||||| ||||| |||||||| ||||||| | ||
gtaattcccgtttcctgataccttttctccaatgttatactccaacgcatccaaggaaacgtttcgctttttaggtgttgtgctctttgtttttgtca-tgtattgaaagaagaactaagttttgtatttgttttgggcacagGAAGACTAGAATATGGCTAGGCACGTTCGAAACGGCTGAGGACGCGGCACGAGCATATGATGAAGCAGCCAGGCTCATGTGTGGGCCAAGAGCTCGCACC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtatctgacagtgtctcgaaacattattgattcaaactttcttctaatttgcagGAAAACTAGGATATGGCTAGGAACTTTTGAAACTGCTGAGGATGCAGCTAGAGCCTATGATGAAGCAGCAAGGCTAATGTGTGGCACAAGAGCAAGAACT
ttctaat putative branch site (score: 2)
ctttcttctaattt CT-rich tract
aaacattattgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtcaaaccaatgtttgaatctccgttaaaaaggtgtttacatatagtatctgacagtgtctcgaaacattattgattcaaactttcttctaatttgcagGAAAACTAGGATATGGCTAGGAACTTTTGAAACTGCTGAGGATGCAGCTAGAGCCTATGATGAAGCAGCAAGGCTAATGTGTGGCACAAGAGCAAGAACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- tcaaacc
- - - - - atgtttg
- - - - - - - - - - - - - - - - ggtgttt
- - - - - - - - - - - - - - - - - - - - - - - gtatctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - cagtgtc