Sequence
atgc intronic sequence ATGC exonic sequence...ttttaattgaattacactggactttgagtggctgctttttctttgctcaccagtaagtgtttttatttttgttggaactaattatttctgtttttatcagAAATGGCGATACATATGCTGGCGAATACTTTGCGGATAAGATGCATGGATTTGGGGTATACAGTTTTGCTAATGGCCATCGTTATGAAGGATCCTGGCAT
Basic information
species | Glycine max |
transcript | GLYMA03G25510.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G25510.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os10g41534.3 (Oryza sativa), 3'ss of exon 1
ttttaattgaattacactggactttgagtggctgctttttctttgc--tcaccagtaagtgttttt---atttttgttggaactaa--ttatttctgtttttatca-gAAATGGCGATACATATGCTGGCGAATACTTTGCGGATAAGATGCATGGATTTGGGGTATACAGTTTTGCTAATGGCCATCGTTATGAAGGATCCTGGCAT
||| | || | || | | || || | | ||| || ||| |||| | || || ||||||| || | | || | ||| | ||||||||||| |||||||| || |||||||| |||| |||||||| || || || ||||||||||| ||||| || | || || ||| | ||||||
-------tgattcac-tagtgctctatatatctatttatacgatgcagcatcctgtacaagtttattgggttgacctttgaactaacattttgttaacttgtgtcaagGAATGGCGATACCTATGCTGGGGAGTACTTTGCTGATAGAATGCATGGCTTCGGAGTCTACAGTTTTGCCAATGGTCACAGATACGAGGGAGCTTGGCAT
upper sequence: GLYMA03G25510.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv15s0021g01010.t01 (Vitis vinifera), 3'ss of exon 2
ttttaattgaattacactggactttgagtggctgctttttctttgctcaccagtaagtgtttttatttttgttggaactaa-ttatttctgtttt-tatc-agAAATGGCGATACATATGCTGGCGAATACTTTGCGGATAAGATGCATGGATTTGGGGTATACAGTTTTGCTAATGGCCATCGTTATGAAGGATCCTGGCAT
||| || || | | | || | | | || | | | | ||||| |||| | | | || |||| |||||||| || ||||||||||| ||||||||||| || ||||||||||| ||||| | || | |||||| ||||| ||||| ||||| ||| ||||||||
---taaatgctttctctcatgttgcttctaagaaaaatgcattgccatatgtaaattcaattcaacctgcttggttactaacttatctatatattatatccagAAATGGGGACACATATGCTGGAGAATACTTTGCAGACAAGATGCATGGGTTTGGAATTTATAATTTTGCCAATGGTCATCGGTATGAGGGAGCCTGGCAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctcaccagtaagtgtttttatttttgttggaactaattatttctgtttttatcagAAATGGCGATACATATGCTGGCGAATACTTTGCGGATAAGATGCATGGATTTGGGGTATACAGTTTTGCTAATGGCCATCGTTATGAAGGATCCTGGCAT
aactaat putative branch site (score: 2)
ttatttctgttttt CT-rich tract
tttttatttttgttgg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttaattgaattacactggactttgagtggctgctttttctttgctcaccagtaagtgtttttatttttgttggaactaattatttctgtttttatcagAAATGGCGATACATATGCTGGCGAATACTTTGCGGATAAGATGCATGGATTTGGGGTATACAGTTTTGCTAATGGCCATCGTTATGAAGGATCCTGGCAT
- - - - - - - cactgga
- - - - - - - - - - - - - - tggctgc
- - - - - - - - - - - - - - - - - - - - - - -ctcacca