Sequence
atgc intronic sequence ATGC exonic sequencegtagtagcatgttttaagtttccatttattggccgttggtattggtttgtgtattaagtactactggtcttcagAAAATTGCGTTGGCATGGATGTTTCAGAAGGAAACAAGTAGTTTCAACTGTCCAGGAGGGATACTAGCAGATGATCAG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G20010.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G20010.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA10G43430.1 (Glycine max), 3'ss of exon 5
--gtagtagcatgttt-taagtttccatttattggccgttggtattggtttgtgtattaagtactac--tggtcttcagAAAATTGCGTTGGCATGGATGTTTCAGAAGGAAACAAGTAGTTTCAACTGTCCAGGAGGGATACTAGCAGATGATCAG
| | || ||| | | | || | | |||| | || ||| | |||| || || || ||||||||||||| ||||| |||||| ||||||||||||| | ||||| | || || ||||| | || ||||| |||
gtattatggcttgtctattaaattgcttctattatttct--gttctgggccatttatttgttatcactttgtatttcagAAAATTGCATTGGCTTGGATGCTTCAGAAGGAAACCAAGAGTTTGCATTGCTTGGGGGGGATTTTGGCTGATGACCAG
upper sequence: AT3G20010.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA20G23390.1 (Glycine max), 3'ss of exon 3
gtagta--gcatgttt-taagtttccatttattggccgttggtattggtttgtgtattaagtactac--tggtcttcagAAAATTGCGTTGGCATGGATGTTTCAGAAGGAAACAAGTAGTTTCAACTGTCCAGGAGGGATACTAGCAGATGATCAG
||| || || ||| | | | || | ||||| | || ||| | |||| || || || ||||||||||||| ||||| |||||| ||||||||||||| | ||||| | || || ||||| | || |||||||||
gtattaaggcttgtctattaaattgcttttatcatttct--gttctgggccatttatttgttatcactttgtatttcagAAAATTGCATTGGCTTGGATGCTTCAGAAGGAAACCAAGAGTTTGCATTGCTTGGGGGGGATTTTGGCTGATGATCAG
upper sequence: AT3G20010.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv10s0071g00780.t01 (Vitis vinifera), 3'ss of exon 3
--------------------------------------------------------------------------------------gtagtagcatgttttaagtttccatttattggccgttggtat---tggtttgtgtattaagtactactggtcttcagAAAATTGCGTTGGCATGGATGTTTCAGAAGGAAACAAGTAGTTTCAACTGTCCAGGAGGGATACTAGCAGATGATCAG
| | || | ||| | | | | | | | || || |||||| |||| | || | ||||||||||| |||||||||||| ||||||||||||||| ||||| | ||| || ||||| ||||| |||||||||
gttgtttttttttttgttttttttctatttttttattttttttctgcatctactttagttgactttggtttgtatgtgaattacttggtttgagatactgtaattatacttcgaattgtgtgtgaaatacttggttttgaccctaaggtattttgtcgtacagAAAATTGCATTGGCATGGATGCATCAGAAGGAAACAAGAAGTTTACATTGTTTGGGCGGGATTCTAGCTGATGATCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttccatttattggccgttggtattggtttgtgtattaagtactactggtcttcagAAAATTGCGTTGGCATGGATGTTTCAGAAGGAAACAAGTAGTTTCAACTGTCCAGGAGGGATACTAGCAGATGATCAG
tcttc CT-rich tract
tattaagta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagtagcatgttttaagtttccatttattggccgttggtattggtttgtgtattaagtactactggtcttcagAAAATTGCGTTGGCATGGATGTTTCAGAAGGAAACAAGTAGTTTCAACTGTCCAGGAGGGATACTAGCAGATGATCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG