Sequence
atgc intronic sequence ATGC exonic sequencegtttgttcagaacacaaagttgttactgcgcttgtataaaggctatcatgctgggtaactcttttcaatctgttggtcttcacagGATCTGGCTGTGGTCGTGTTACTGATTCTCATCCCACTTATTTCACCTAATTCATCCAAAGGAGGG
Basic information
species | Arabidopsis thaliana |
transcript | AT4G00630.2 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G00630.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA18G46420.1 (Glycine max), 3'ss of exon 15
----------------gtttgttcagaacacaaagttgttactgcgcttgtataaaggctatcatgctgggtaactcttttcaatctgttggtcttcacagGATCTGGCTGTGGTCGTGTTACTGATTCTCATCCCACTTATTTCACCTAATTCATCCAAAGGAGGG
| | | | | | || ||| || |||||| ||| || | ||| | ||| | ||| |||||||||||||| || || || || || ||||| || |||||||| |||||||| ||||||||||||
tgattatttgttattagctcttaaatgcctttcatttcttattgta-ttgtatttgcaatattttgacacaaattgactttgactctttgtttctgttcagGATCTGGCTGTTGTGGTCTTGCTAATACTCATACCTCTTATTTCTCCTAATTCTTCCAAAGGAGGG
upper sequence: AT4G00630.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA09G39770.1 (Glycine max), 3'ss of exon 11
---------gtttgttcag-aacacaaagttgttactgcgcttgtataaaggctatc--atgctgg-gtaactc--ttttcaatctgttggtcttcacagGATCTGGCTGTGGTCGTGTTACTGATTCTCATCCCACTTATTTCACCTAATTCATCCAAAGGAGGG
| | || | | | || ||| || | || | || | || || || | ||| | ||| | | | |||||||||||||| || || || || || ||||| || |||||||| |||||||| ||||||||||||
tttgttattatctcttaaatgcctttcatttcttattgtattggttttgcaactttttgattttgacacaaattgacttttactctttgtttatattcagGATCTGGCTGTCGTGGTCTTGCTAATACTCATACCTCTTATTTCTCCTAATTCTTCCAAAGGAGGG
upper sequence: AT4G00630.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA07G08030.1 (Glycine max), 3'ss of exon 7
--------------gtttgttcagaacacaaagttgttactgcgcttg---tataaaggctatcatgctgggtaactcttttcaatctgttggtcttcacagGATCTGGCTGTGGTCGTGTTACTGATTCTCATCCCACTTATTTCACCTAATTCATCCAAAGGAGGG
| |||| | | | || ||| | || | | | | | | || | | |||| ||| |||||| ||||||| || || || || || ||||| || ||| ||||||||||||| ||||||||||||
ccattgctatatcaatctgttgttttttttatctattaaccatatttggtattccaatattttgaccgaaactgagtattgtgtctttgtt--tctgttcagGATTTGGCTGTTGTTGTCTTGCTAATACTCATACCTCTTGTTTCACCTAATTCTTCCAAAGGAGGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttgtataaaggctatcatgctgggtaactcttttcaatctgttggtcttcacagGATCTGGCTGTGGTCGTGTTACTGATTCTCATCCCACTTATTTCACCTAATTCATCCAAAGGAGGG
gggtaac putative branch site (score: 3)
tcttcac putative PPT
ttttcaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgttcagaacacaaagttgttactgcgcttgtataaaggctatcatgctgggtaactcttttcaatctgttggtcttcacagGATCTGGCTGTGGTCGTGTTACTGATTCTCATCCCACTTATTTCACCTAATTCATCCAAAGGAGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG