Sequence
atgc intronic sequence ATGC exonic sequencegtcttgattcatcattaaactgcatattttgttgtcataagaggagttattgaactggtgctgtatctctgttcacagAAAGCTCATGTTCAACAATTTTTGGCTACTGAAGATGCACTAAACAAGGCTGCAGAAGCAAGGGATATGTGTGAAAAACTTATGAAACGTTTGCATGGAG
Basic information
species | Glycine max |
transcript | GLYMA08G27740.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G27740.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G38880.1 (Arabidopsis thaliana), 3'ss of exon 3
------------------------------------------------------------------------------------------------------------------------gtcttgattcatcattaaactgcatattttgttgtcataagaggagttat-tgaactggtgc-tgtatctctgttcacagAAAGCTCATGTTCAACAATTTTTGGCTACTGAAGATGCACTAAACAAGGCTGCAGAAGCAAGGGATATGTGTGAAAAACTTATGAAACGTTTGCATGGAG
|| || | || || |||| || | ||| ||| |||| | |||| | ||| || || |||||||| ||||||||||||||||||||||||||||||||||||||||| || || ||||| | ||| | || | || |||| || ||||||||||||
gttgctttctatgtctagttttgctggtttcttcttgttaatttgaagatatggagaaaggagggttaagcttcaggcaaatgtttaattcagaaagatatgttttggtcttctagtgctgtatttgtatat-gttgcactgtatggctatatgtttaaagtctgtttatcttaactttcacctgtgctactttttccagAAAGCCCATGTTCAACAATTTTTGGCTACTGAAGATGCACTAAACAAAGCAGCTGAAGCTCGTGATTTATGCCACAAGTTTATTAACCGTTTGCATGGAA
upper sequence: GLYMA08G27740.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0083g00990.t01 (Vitis vinifera), 3'ss of exon 3
------------gtcttgattcatcattaaactgcatattttgttgtcataa----gaggagttattgaactggtgctgtatctctgttcac------agAAAGCTCATGTTCAACAATTTTTGGCTACTGAAGATGCACTAAACAAGGCTGCAGAAGCAAGGGATATGTGTGAAAAACTTATGAAACGTTTGCATGGAG
| ||| | | | | | ||||| | | || | |||||| || || || | | ||||||| ||||||| |||||||| |||||| | ||||||||||||||||| || || || |||||||| || || ||||| |||| ||||| |||||| | || |||
attttgtggcacattttgctacttatgtttattgcattctactcagatttatctctgtggagttgtttaattgatatcaagccaatgttcactcctgcagAAAGCACATGTTCAGCAATTTGTAGCTACTGAAGATGCACTCAATAAAGCAGCAGAAGCTAGAAATTTGTGTCAAAAGCTTATAAAACGTCTACAAGGAA
upper sequence: GLYMA08G27740.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S189_50V6.2 (Physcomitrella patens), 3'ss of exon 3
------------------gtcttgattcatcat-taaactgcatattttgttgtcataagaggagttattgaactggtgctgtatctctgtt----cacagAAAGCTCATGTTCAACAATTTTTGGCTACTGAAGATGCACTAAACAAGGCTGCAGAAGCAAGGGATATGTGTGAAAAACTTATGAAACGTTTGCATGGAG
| | | | | | || | |||| | | ||| || ||| | || | | | ||| || ||||||||||||||||| |||||| |||| || |||||||| | || ||| || |||| | ||| | |||| || | || | | |||
acctcgaaccgcatgagggatcgggtgtgttgtgtccacagtgggttttttcg-cattagtcttgtttgttttctaacgttatttctactttattttgcagAAAGCTCATGTTCAGCAATTTATGGCCACCGAAGATGCCTTGAATCAGGTGGCGCAAGCCAAAAGAATGACCAATGAACTCATTAGGCGGGTACGTGGTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atattttgttgtcataagaggagttattgaactggtgctgtatctctgttcacagAAAGCTCATGTTCAACAATTTTTGGCTACTGAAGATGCACTAAACAAGGCTGCAGAAGCAAGGGATATGTGTGAAAAACTTATGAAACGTTTGCATGGAG
tctctgttc CT-rich tract
ttattgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcttgattcatcattaaactgcatattttgttgtcataagaggagttattgaactggtgctgtatctctgttcacagAAAGCTCATGTTCAACAATTTTTGGCTACTGAAGATGCACTAAACAAGGCTGCAGAAGCAAGGGATATGTGTGAAAAACTTATGAAACGTTTGCATGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA