Sequence
atgc intronic sequence ATGC exonic sequence...tagtctcaactagtttccataacatgtaattgagcattattctatcttgtaagttgaaaaatctaatagcatgccataaagatattataacaatttgcagATGCATATGTGGGGGCACGGATCCGAATTTAGGAAAGGACCAGAGTCACTTAAAGGAACACAACCAGCTGCAATGCTAAGGCTACCATGTTACTGTTGTG
Basic information
species | Glycine max |
transcript | GLYMA13G39370.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G39370.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv06s0080g00270.t01 (Vitis vinifera), 3'ss of exon 1
---tagtctcaactagtttccataacatgtaattgagcattattctatcttgtaagttgaaaaat-ctaatagcatgccataaagatattataacaatttgcagATGCATATGTGGGGGCACGGATCCGAATTTAGGAAAGGACCAGAGTCACTTAAAGGAACACAACCAGCTGCAATGCTAAGGCTACCATGTTACTGTTGTG
| || | | | | | | | || || | | | | | || | || | | | | ||| | | || | || |||||||||||||||||||| ||||| |||| ||| ||||||||||| || || | ||| |||||||||| |||||||| |||||||| ||||| |||||||
aagttaactgagacatcattaacattttctttttcagtttaaaaatgatgttgattctgctagatgttgagcacttaccacattcttcttgtgg----ttacagATGCATATGTGGGGGCATGGATCTGAATATAGAAAAGGACCAGAATCCCTCAGAGGGGCACAACCAGCAGCAATGCTGAGGCTACCTTGTTATTGTTGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttgtaagttgaaaaatctaatagcatgccataaagatattataacaatttgcagATGCATATGTGGGGGCACGGATCCGAATTTAGGAAAGGACCAGAGTCACTTAAAGGAACACAACCAGCTGCAATGCTAAGGCTACCATGTTACTGTTGTG
ttataac putative branch site (score: 2)
ataaagatattataac 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagtctcaactagtttccataacatgtaattgagcattattctatcttgtaagttgaaaaatctaatagcatgccataaagatattataacaatttgcagATGCATATGTGGGGGCACGGATCCGAATTTAGGAAAGGACCAGAGTCACTTAAAGGAACACAACCAGCTGCAATGCTAAGGCTACCATGTTACTGTTGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - catgtaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgcca