Sequence
atgc intronic sequence ATGC exonic sequencegtaagaaatctccttcccctgaagagattgagttatatatcaaatgctttccaggtgatgttgcattcttcattgttgcactggcttttttcgctgtagGTTGCTCGAAAGATGAAGGATGAAGAAGCCTTCTATTATCCTCACAATCTTGATTTTCGAGGGCGAGCTTATCCCATGCACCCATATTTGAATCATCTTG
Basic information
species | Glycine max |
transcript | GLYMA16G13080.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G13080.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv01s0010g00690.t01 (Vitis vinifera), 3'ss of exon 8
gtaagaaatctccttcccctgaagagattgagttatatatcaaatgctttccaggtgatgttgcattcttc----attgttgcactg--gcttttttcgctg----tagGTTGCTCGAAAGATGAAGGATGAAGAAGCCTTCTATTATCCTCACAATCTTGATTTTCGAGGGCGAGCTTATCCCATGCACCCATATTTGAATCATCTTG
| || | | | | | ||| ||| ||||| || || | || || | || ||||||| || |||| ||||||||||||||||||||||| | ||||| ||||| ||||| |||||||||||||| || || || |||||||| |||||||| || |||||||
---------------------------gtaagatgcttctatattaattttatagtgctgttgaatgctctgataaatggtgtattgatgctttttcaaatgggagcagGTGGCTCGAAAGATGAAGGATGAAGATGGCTTCTTCTATCCCCACAACCTTGATTTTCGAGGTCGTGCCTACCCCATGCATCCATATTTAAACCATCTTG
upper sequence: GLYMA16G13080.1 (Glycine max), 3'ss of exon 8
lower sequence: PP1S246_118V6.1 (Physcomitrella patens), 3'ss of exon 10
--------------------------------------------------------------------gtaagaaatctccttcccctgaagagattgagttata---tatcaaatgctttccaggtgatgttgcattcttcattgttgcactggcttttttcgctgtagGTTGCTCGAAAGATGAAGGATGAAGAAGCCTTCTATTATCCTCACAATCTTGATTTTCGAGGGCGAGCTTATCCCATGCACCCATATTTGAATCATCTTG
|| |||| || | || | | ||||| || || | | | ||| |||| |||| | | | || | |||| ||| || | | ||||||||||| ||||| ||||| ||||||||||| || | || ||||| || |||||||||||| | |||||||| | |
gtatgtttcatgctcttcccattaagtcatttgtgttcgttcctgtcctgtttgttgtttccgtatgagtcttgtatcttctggctcttatattgtcttgttattccttactgcattgtcattttttccttctgctttctcttttgtcctaagcattgtcttggtaacagGTAGCTAATAAACTCATTGATGAAGAAGCTTTCTACTATCCCCACAATCTTGACTTCAGGGGACGAGCGTACCCCATGCACCCACACTTGAATCACTTAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgctttccaggtgatgttgcattcttcattgttgcactggcttttttcgctgtagGTTGCTCGAAAGATGAAGGATGAAGAAGCCTTCTATTATCCTCACAATCTTGATTTTCGAGGGCGAGCTTATCCCATGCACCCATATTTGAATCATCTTG
cttttttcgct CT-rich tract
tttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagaaatctccttcccctgaagagattgagttatatatcaaatgctttccaggtgatgttgcattcttcattgttgcactggcttttttcgctgtagGTTGCTCGAAAGATGAAGGATGAAGAAGCCTTCTATTATCCTCACAATCTTGATTTTCGAGGGCGAGCTTATCCCATGCACCCATATTTGAATCATCTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT