Sequence
atgc intronic sequence ATGC exonic sequence...ttaaaattctagtgtactagaaattgtgcacttgcatttttgtttgcgttctcactaacgtgaatcctaatgttgttgttgttgttgttgttgatgaaagGTGTGATGTTACATTAATACTACTTGAGATGGATAGAATTTTGAGACCAGAAGGAACCGTGGTGTTTAGAGACACTGTGGAAATGTTGACGAAGATACAA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G33170.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G33170.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA08G03000.1 (Glycine max), 3'ss of exon 4
-ttaaaattctagtgtactagaaattgtgcacttgcatttttgtttgcgttctcactaacgt-----gaatcct--aatgttgttgttgtt--gttgttgttgatgaaagGTGTGATGTTACATTAATACTACTTGAGATGGATAGAATTTTGAGACCAGAAGGAACCGTGGTGTTTAGAGACACTGTGGAAATGTTGACGAAGATACAA
| | || | || | || ||| | | || | | | | || ||| | | | || | || || | ||||| | | | ||||||| ||||||||| | |||| |||||||| |||||||||||||||||||| |||||||| || || || || || || || ||||| | || |||||| ||
gtaggcaaacttatata-tggacattat-ctctacctctctagcttatgttattaattgtgtcttaagtattctatagtgttgaaatggattaattgttgtgtgtgaaagGTGCAACATTACTCATATACTACTGGAGATGGATAGAATTTTGAGGCCAGAAGGTACTGTAGTATTCAGGGAGACAGTGGAGCTTCTGGTGAAGATTAAA
upper sequence: AT1G33170.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA05G36550.1 (Glycine max), 3'ss of exon 4
-------------------ttaaaattctagtgtactag---aaattgtgcacttgcatttttgtt-tgcgttctcactaacgtgaatcctaatgttgttgttgtt--gttgttgttgatgaaagGTGTGATGTTACATTAATACTACTTGAGATGGATAGAATTTTGAGACCAGAAGGAACCGTGGTGTTTAGAGACACTGTGGAAATGTTGACGAAGATACAA
|| | |||| |||| | || | | || |||| || || | || | | | | ||| | | | ||||||| || |||||| | |||| |||||||| |||||||||||||||||||| |||||||| || || | || ||||| || ||||| | || |||||| ||
gtaggtaaacttatggacattgtatatctaactctctaggttatgttatttatttcttaccatgttatgaattgtgtcttaattattatatggttttgaaatggattaattgttgtgtgtggaagGTGCAACATTACTCAGATACTACTGGAGATGGATAGAATTTTGAGGCCAGAAGGTACTGTTATATTCAGAGAGACAGTGGAGCTTCTGGTGAAGATTAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcgttctcactaacgtgaatcctaatgttgttgttgttgttgttgttgatgaaagGTGTGATGTTACATTAATACTACTTGAGATGGATAGAATTTTGAGACCAGAAGGAACCGTGGTGTTTAGAGACACTGTGGAAATGTTGACGAAGATACAA
taatgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttaaaattctagtgtactagaaattgtgcacttgcatttttgtttgcgttctcactaacgtgaatcctaatgttgttgttgttgttgttgttgatgaaagGTGTGATGTTACATTAATACTACTTGAGATGGATAGAATTTTGAGACCAGAAGGAACCGTGGTGTTTAGAGACACTGTGGAAATGTTGACGAAGATACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - ctagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atcctaa