Sequence
atgc intronic sequence ATGC exonic sequencegtaggaaggcagatattttggacttttggttgcttccattttaattgtggttgtattgcttccaaaatgatatactgattttgatcttaacctcaattgcagGAAGTGGAGCTGTGATTGCACGCTCATCACAACCTTTAGTGGGTCTTATGATGAATATGAGGAG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G10550.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G10550.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA10G34510.1 (Glycine max), 3'ss of exon 2
-----------------------------------gtagga--aggcagatattttggacttttggttgcttccattttaattgtggttgtattgcttccaaaatgatatactgattttgatcttaacctcaattgcagGAAGTGGAGCTGTGATTGCACGCTCATCACAACCTTTAGTGGGTCTTATGATGAATATGAGGAG
|| || | | ||| | |||| || ||| | ||| ||| | | | || | | || | | || | | | || | | | || | |||||| || ||||||| || || ||||| ||||| |||||||||||||| ||||||||
gtatgtgcagaatctaggtttcatttctttaaatagttggcacaattctgtgtttcttatttttactttctttcttttgcattttattattgttttatgtgga-tggtcttctaactat-atggaactgatgactatagTGACTGGAGCAGTTGTTGCACGATCTTCTCAACCCTTAGTAGGTCTTATGATGAACATGAGGAG
upper sequence: AT3G10550.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA20G33040.1 (Glycine max), 3'ss of exon 2
------------------------------------gtagga-aggcagatattttggacttttggttgcttccattttaattgtggttgtattgcttccaaaatgatatactgattttgatcttaacctca--attgcagGAAGTGGAGCTGTGATTGCACGCTCATCACAACCTTTAGTGGGTCTTATGATGAATATGAGGAG
| | | | || ||| | |||| || ||| | | || || | ||| ||| | | ||| || | || | || || | | | || | |||||| || ||||||| || || ||||| ||||| |||||||||||||| ||||||||
gtatgtgcagaatctaggtttcatttctttaaatagctggcacaattctatgtttcttatttttactttctttcctcttctttctt-ttgcattttattatcgacgatggccttctaactatatgaaactgatgactatagTGACTGGAGCAGTTGTTGCACGATCTTCTCAACCCTTAGTAGGTCTTATGATGAACATGAGGAG
upper sequence: AT3G10550.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv13s0074g00300.t01 (Vitis vinifera), 3'ss of exon 8
gtaggaaggcagatattttggacttttggttgcttccattttaattgtggttgtattgcttccaaaatgatatactgattttgatcttaacctcaattgcagGAAGTGGAGCTGTGATTGCACGCTCATCACAACCTTTAGTGGGTCTTATGATGAATATGAGGAG
| | |||| || | | | ||| || | |||| | | | ||| || | || | || | | | | || || || |||||| || ||||||||||||| || || |||| ||||| |||||||||||||||||
----gtatgcagttaatatttattttc--ttatatgttttttggtcatcact---ttgttttctaatc----------tcttcaacatgtgatggcttatagTAACTGGAGCAGTTCTTGCACGCTCATCTCAGCCCCTAGTTGGTCTCATGATGAATATGAGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggttgtattgcttccaaaatgatatactgattttgatcttaacctcaattgcagGAAGTGGAGCTGTGATTGCACGCTCATCACAACCTTTAGTGGGTCTTATGATGAATATGAGGAG
tcttaac putative branch site (score: 2)
aaaatgatata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggaaggcagatattttggacttttggttgcttccattttaattgtggttgtattgcttccaaaatgatatactgattttgatcttaacctcaattgcagGAAGTGGAGCTGTGATTGCACGCTCATCACAACCTTTAGTGGGTCTTATGATGAATATGAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG