Sequence
atgc intronic sequence ATGC exonic sequence...ctctgttatgtttcaattcagatgtgactaaatagatatgatttatcatgtttatatattgtctcatttcaacctcaatgagtatttaccactttcacagGTTCGTGTTTGTGCTTTTCCAGCAAGTCGATTGGGATTGCAAGGGATAGGAATTAGTCCAGACTGCAATCCTGAAAACGTGTGTAGCCCACGACAG
Basic information
species | Glycine max |
transcript | GLYMA08G19720.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G19720.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os11g34370.1 (Oryza sativa), 3'ss of exon 5
---ctctgttatgt-ttcaattcagatgtgactaaatagatatgatttatcatgtttatatattgtctcatttcaacctcaatgagtatttaccactttcacagGTTCGTGTTTGTGCTTTTCCAGCAAGTCGATTGGGATTGCAAGGGATAGGAATTAGTCCAGACTGCAATCCTGAAAACGTGTGTAGCCCACGACAG
|| || ||| || | |||| || || | || | |||| | | || | || | | ||| | || | |||||||| |||||||||| ||||| |||||| | |||||||||||||| || |||||||||||||||||||| || ||| |||||| ||||||
gtactactttgtgtacacatctttgatgcatacaacaggaca--atgtgccatgct-gcctgttttgcaatgcttattcttgacactatgc-ctacaattgcagGTTCGAATTTGTGCTTTCCCAGCCAGTCGACTAGGATTGCAAGGGATTGGTATTAGTCCAGACTGCAATCCGGAGAACAGAGCTAGCCCCCGACAG
upper sequence: GLYMA08G19720.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv12s0034g01170.t01 (Vitis vinifera), 3'ss of exon 5
-ctctgttatgtttcaattcagatgtgactaaatagatatgatttatcatgtttatatattgtctcatttcaacctcaatgagtatttaccact----ttcacagGTTCGTGTTTGTGCTTTTCCAGCAAGTCGATTGGGATTGCAAGGGATAGGAATTAGTCCAGACTGCAATCCTGAAAACGTGTGTAGCCCACGACAG
| | | || ||||| |||| | ||||| | || | | | |||| || | ||||| || | ||||| || | | | | || ||||||||||| |||||||| || ||| |||| ||||| ||| | ||||| || || ||||||||||||||||||||||| | || ||| ||| ||
tcatttgtgccttcaaattc---tgtggc-aaataaaactggatcttttcatgtatacat-gaaacattttaaagttaatgaatactcaatattgttgtttgcagGTTCGTGTCTGTGCTTTCCCCGCAGGTCGGTTGGGGTTGGATGGGATTGGGATAAGTCCAGACTGCAATCCTGAAAATAGGGCTACCCCTCGAGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcatgtttatatattgtctcatttcaacctcaatgagtatttaccactttcacagGTTCGTGTTTGTGCTTTTCCAGCAAGTCGATTGGGATTGCAAGGGATAGGAATTAGTCCAGACTGCAATCCTGAAAACGTGTGTAGCCCACGACAG
ccactttc CT-rich tract
tttatatattgtct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctctgttatgtttcaattcagatgtgactaaatagatatgatttatcatgtttatatattgtctcatttcaacctcaatgagtatttaccactttcacagGTTCGTGTTTGTGCTTTTCCAGCAAGTCGATTGGGATTGCAAGGGATAGGAATTAGTCCAGACTGCAATCCTGAAAACGTGTGTAGCCCACGACAG
- -tgttatg
- - - - - - -caattca
- - - - - - - - - - - -gtgacta
- - - - - - - - - - - - - - - - - - - - - - -tcatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acctcaa