Sequence
atgc intronic sequence ATGC exonic sequencegtaggtactgttttctttggtttgacggtatcatactcatgatccctttccagcaaattttttgatgtatgttctaaatttgaatagAAAGAAGGTGAATATTTAAGTGGGCATGAGGTGTTTCTCAAGCGGGTTGCTTCAGCATTCAACAGTTTTGTGGAGTCCACAGAAAAATCATGTCGTGACA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G19720.2 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G19720.2 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA08G07990.2 (Glycine max), 3'ss of exon 10
---------------gtaggtactgttttctttg-gtttgacggtatcatactcatgatccctttccagcaaattttttgatgtatgttctaaatttgaatagAAAGAAGGTGAATATTTAAGTGGGCATGAGGTGTTTCTCAAGCGGGTTGCTTCAGCATTCAACAGTTTTGTGGAGTCCACAGAAAAATCATGTCGTGACA
| | | | | || | |||| | || || || || | | || || ||| || ||||| | ||||| ||||||| |||||||| ||||||| ||||||||||| |||| ||| ||||| || || ||||||| |||| || || || ||||||||||| ||||| |
gaatcagttgtttatgcttttgcaatatcctaagagttttgtgcaattatttgtttgtcattttccta--aatttattttatttatgtattttgtttga-cagAAAGATAGTGAATATCTAAGTGGCCATGAGGTGTTCCTCAGGCGTGTTGCCTCTGCCTTCAACAACTTTGCAGAATCTACTGAAAAATCATGCCGTGAAA
upper sequence: AT3G19720.2 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: Vv12s0055g00490.t01 (Vitis vinifera), 3'ss of exon 12
---------------------------------------------gtaggtactgttttctttggtttgacggtatcata-ctcatgatccctttccagcaaattttttgatgtatgtt---ctaaatttgaatagAAAGAAGGTGAATATTTAAGTGGGCATGAGGTGTTTCTCAAGCGGGTTGCTTCAGCATTCAACAGTTTTGTGGAGTCCACAGAAAAATCATGTCGTGACA
| | || ||||| || | | || || | || ||| | | || | | | | || || |||||||||| ||||||||| ||||||| ||||||||||||||| ||| |||||||| || ||||||| ||||| || ||||| |||| | ||| | ||| |
gtatgagattagtcatctcttagactggtaatcttttttccttttgcatataaaactttctgaatattatgcatctaatttctggtaatttttttggggttacttatccttcctttacttgactggtttccaatagAAAGATGGTGAATATCTAAGTGGCCATGAGGTGTTTCTCCGGCGTGTTGCTTCGGCCTTCAACAATTTTGCTGAATCCACTGAAAGAGAATGCCATGAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atactcatgatccctttccagcaaattttttgatgtatgttctaaatttgaatagAAAGAAGGTGAATATTTAAGTGGGCATGAGGTGTTTCTCAAGCGGGTTGCTTCAGCATTCAACAGTTTTGTGGAGTCCACAGAAAAATCATGTCGTGACA
ttctaaa putative branch site (score: 2)
aaattttttgatgtat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggtactgttttctttggtttgacggtatcatactcatgatccctttccagcaaattttttgatgtatgttctaaatttgaatagAAAGAAGGTGAATATTTAAGTGGGCATGAGGTGTTTCTCAAGCGGGTTGCTTCAGCATTCAACAGTTTTGTGGAGTCCACAGAAAAATCATGTCGTGACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG