Sequence
atgc intronic sequence ATGC exonic sequence...catgaatgaatgagactacctactttacgtgagtcagtttgccatcaatttaactagtttgagtttacattgtaattaatgttgagagagttcatcgcagTATGTCTATTTGTGATTTCCATTGCAAAGGAGGAAGCCACCAAGTTGGGGACGGTCATTGGGATTGATCTTGGAACAACCTATTCATGTGTTGGTGTTTA
Basic information
species | Glycine max |
transcript | GLYMA05G36600.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G36600.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv16s0098g01580.t01 (Vitis vinifera), 3'ss of exon 1
--catgaatgaatgagactacctactttacgtgagtcagtttgccatcaatttaactagtttgagtttacattgtaattaatgttgagagagttcatcgcagTATGTCTATTTGTGATTTCCATTGCAAAGGAGGAAGCCACCAAGTTGGGGACGGTCATTGGGATTGATCTTGGAACAACCTATTCATGTGTTGGTGTTTA
| ||| |||| | || | | | ||||| || | | || | || || || | || | ||| | | || |||| |||| | ||| ||| || || ||||| |||||| ||| ||| ||||| || || ||||| ||||||||||||||||| || || ||||||||||||||
tttaactatgtttgagttaaact-ttatccctgagttctttaggtaagttttcagaatcaatggaattgaatgttgat-gaggttaatctacactatggcagGATGTTTGGTTGCGATCTCTATCGCAAAAGAGGAATCCAACAAATTGGGAACAGTTATTGGTATTGATCTTGGAACAACTTACTCTTGTGTTGGTGTTTA
upper sequence: GLYMA05G36600.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv02s0025g02140.t01 (Vitis vinifera), 3'ss of exon 1
catgaatgaatgagactacctactttacgtgagtc--agtttgccatcaatttaactagtttgagtttacattgtaa-ttaatgttgagagagttcatcgcagTATGTCTATTTGTGATTTCCATTGCAAAGGAGGAAGCCACCAAGTTGGGGACGGTCATTGGGATTGATCTTGGAACAACCTATTCATGTGTTGGTGTTTA
||| ||| ||| | || | || ||| | | | | | | || |||| || ||| ||||| || | | | || |||| || |||| || |||||||||||||| |||||||| ||||||||||| || ||||| ||||| ||||||||||||||||| |||||||||||||||||
--agaaagaact-gacaagctggatcacctgaactgaaaatggttctaagtgctggctgtgtgagctttatttgagtcttaatatttccaaactgtattgcagGATTTCTAGCTGCAATTTCCATTGCAAAAGAGGAAGCAACCAAGTTGGGAACTGTCATCGGGATAGATCTTGGAACAACCTACTCATGTGTTGGTGTTTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caatttaactagtttgagtttacattgtaattaatgttgagagagttcatcgcagTATGTCTATTTGTGATTTCCATTGCAAAGGAGGAAGCCACCAAGTTGGGGACGGTCATTGGGATTGATCTTGGAACAACCTATTCATGTGTTGGTGTTTA
aattaat putative branch site (score: 3)
tttacattgtaattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catgaatgaatgagactacctactttacgtgagtcagtttgccatcaatttaactagtttgagtttacattgtaattaatgttgagagagttcatcgcagTATGTCTATTTGTGATTTCCATTGCAAAGGAGGAAGCCACCAAGTTGGGGACGGTCATTGGGATTGATCTTGGAACAACCTATTCATGTGTTGGTGTTTA
catgaat
- - - -gaatgag
- - - - - - - - - - - - - - - - - - - -tgccatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttgag