Sequence
atgc intronic sequence ATGC exonic sequencegtatgtgcagaatctaggtttcatttctttaaatagctggcacaattctatgtttcttatttttactttctttcctcttctttcttttgcattttattatcgacgatggccttctaactatatgaaactgatgactatagTGACTGGAGCAGTTGTTGCACGATCTTCTCAACCCTTAGTAGGTCTTATGATGAACATGAGGAG
Basic information
species | Glycine max |
transcript | GLYMA20G33040.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G33040.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G10550.1 (Arabidopsis thaliana), 3'ss of exon 8
gtatgtgcagaatctaggtttcatttctttaaatagctggcacaattctatgtttcttatttttactttctttcctcttctttctt-ttgcattttattatcgacgatggccttctaactatatgaaactgatgactatagTGACTGGAGCAGTTGTTGCACGATCTTCTCAACCCTTAGTAGGTCTTATGATGAACATGAGGAG
| | | | || ||| | |||| || ||| | | || || | ||| ||| | | ||| || | || | || || | | | || | |||||| || ||||||| || || ||||| ||||| |||||||||||||| ||||||||
------------------------------------gtagga-aggcagatattttggacttttggttgcttccattttaattgtggttgtattgcttccaaaatgatatactgattttgatcttaacctca--attgcagGAAGTGGAGCTGTGATTGCACGCTCATCACAACCTTTAGTGGGTCTTATGATGAATATGAGGAG
upper sequence: GLYMA20G33040.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv13s0074g00300.t01 (Vitis vinifera), 3'ss of exon 8
gtatgtgcagaatctaggtttcatttctttaaatagctggcacaattctatgtttcttatttttactttctttcctcttctttcttttgcattttattatcgacgatggccttctaactatatgaaactgatgactatagTGACTGGAGCAGTTGTTGCACGATCTTCTCAACCCTTAGTAGGTCTTATGATGAACATGAGGAG
|||| | || |||| |||||| | || ||| | || ||| || || | || | | || ||| | |||||| |||||||||||| ||||||| || ||||| ||| |||| ||||| |||||||| ||||||||
-----------------------------------------------gtatgcagttaatatttattttcttatatgttttttggtcatcactttgttttc-----taatctcttcaacatgtgatg-----gcttatagTAACTGGAGCAGTTCTTGCACGCTCATCTCAGCCCCTAGTTGGTCTCATGATGAATATGAGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgcattttattatcgacgatggccttctaactatatgaaactgatgactatagTGACTGGAGCAGTTGTTGCACGATCTTCTCAACCCTTAGTAGGTCTTATGATGAACATGAGGAG
attttattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtgcagaatctaggtttcatttctttaaatagctggcacaattctatgtttcttatttttactttctttcctcttctttcttttgcattttattatcgacgatggccttctaactatatgaaactgatgactatagTGACTGGAGCAGTTGTTGCACGATCTTCTCAACCCTTAGTAGGTCTTATGATGAACATGAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG