Sequence
atgc intronic sequence ATGC exonic sequencegtactgtttcagatatttgtatctttgttttaaccttccttatgatttgtgacactgttaaggaccatttgcattacataaccattgcatgcttattcattgcagCTACAGTTTTTGCTTATGGACAAACTAGCAGTGGAAAGACATACACAATGAGAGGAATAACAGAGAAGGCTGTCAATGATATCTACGAGCATATTATGAA
Basic information
species | Glycine max |
transcript | GLYMA07G10790.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G10790.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G18370.1 (Arabidopsis thaliana), 3'ss of exon 3
gtactgtttcagatatttgtatctttgttttaaccttccttatgatttgtgacactgttaaggaccatttgcattacataacca--ttgcatgcttattcattgcagCTACAGTTTTTGCTTATGGACAAACTAGCAGTGGAAAGACATACACAATGAGAGGAATAACAGAGAAGGCTGTCAATGATATCTACGAGCATATTATGAA
|| | ||| | |||||| | || ||| |||| || || || | || | | ||| | ||| |||| ||| | ||||| ||||||||||| ||||||||||||||||| || ||||||||| |||| ||||| |||||||||||||| ||| | || || || ||
--------------------------gtacttgtctttttaatgattcttctgtcttttactcgg-atttatcatagatgactaacttccctttttaatgatt-cagCAACAATATTTGCATATGGACAAACAAGCAGTGGAAAGACATATACCATGAGAGGAGTAACGGAGAAAGCTGTCAATGATATTTACAATCACATAATTAA
upper sequence: GLYMA07G10790.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv17s0000g03290.t01 (Vitis vinifera), 3'ss of exon 2
gtactg--tttcagatatttgtatctttgttttaaccttccttatgatttgtgacactgttaaggaccatttgcattacataaccattgcatgcttattcattgcagCTACAGTTTTTGCTTATGGACAAACTAGCAGTGGAAAGACATACACAATGAGAGGAATAACAGAGAAGGCTGTCAATGATATCTACGAGCATATTATGAA
||| || || | || | | | |||| | || | || ||| | | | | | || || || | || |||||| || |||| || | ||||| ||||| ||||| |||||||| ||||| |||||||||||||||||||||||||| ||||| ||||||||||| ||||||| || ||
gtagtgaacatctgtatattatctgtctgttaatatctctttaatagtttattcaattataagcatatatccatgctaaatctacttttatcccttattt-ttacagCAACTATATTTGCATATGGGCAAACCAGCAGTGGGAAGACTTACACAATGAGAGGAATAACAGAGAAAGCTGTTAATGATATCTATAAGCATATAATAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gacactgttaaggaccatttgcattacataaccattgcatgcttattcattgcagCTACAGTTTTTGCTTATGGACAAACTAGCAGTGGAAAGACATACACAATGAGAGGAATAACAGAGAAGGCTGTCAATGATATCTACGAGCATATTATGAA
acataac putative branch site (score: 3)
cttattc putative PPT
attacataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactgtttcagatatttgtatctttgttttaaccttccttatgatttgtgacactgttaaggaccatttgcattacataaccattgcatgcttattcattgcagCTACAGTTTTTGCTTATGGACAAACTAGCAGTGGAAAGACATACACAATGAGAGGAATAACAGAGAAGGCTGTCAATGATATCTACGAGCATATTATGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA