Sequence
atgc intronic sequence ATGC exonic sequencegtatgtattggacattatgatatatattagatttaactttgaacttctagacatttcagatgattgatgttaggcatgttttgtagGATTCAATTTCCAACGGAGTTCCCCTGGAAGATTTTGGGCATGGCCATCCTGATCCTAATTTGAC
Basic information
species | Arabidopsis thaliana |
transcript | AT5G51820.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G51820.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA10G38590.1 (Glycine max), 3'ss of exon 11
---------------gtatgtattggaca-ttatgatatatattagatttaactttgaacttctagacatttcagatgattgatgttaggcatgttttgtagGATTCAATTTCCAACGGAGTTCCCCTGGAAGATTTTGGGCATGGCCATCCTGATCCTAATTTGAC
| | | ||| || || | | ||| || |||| | || | | || | ||||||| |||| | |||||||||||||| || ||| | || ||||||||||||| ||||||||||||||||||||| | ||
gggatgccttgattaattgatttccaacagctactttagggactggatacaaatttgtg--tgaagttactgatattgttggatgttaattatgtaatatagGATTCAATTTCAAATGGAATCCCTTTGGAAGATTTTGGACATGGCCATCCTGATCCTAATCTAAC
upper sequence: AT5G51820.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA20G29230.1 (Glycine max), 3'ss of exon 11
------------gtatgtattggacattatgatatatatta--gatttaactttgaacttctagacatttcagatgattgatgttaggcatgttttgtagGATTCAATTTCCAACGGAGTTCCCCTGGAAGATTTTGGGCATGGCCATCCTGATCCTAATTTGAC
|| ||| | | || ||| || | | | || ||| || | ||| | ||||||| |||| | |||||||||||||| || ||| | || ||||||||||||| ||||||||||||||||||||| | ||
aatgagataccttgattagttgatttccaacagctactttagggactggatacaaatctgtaagaagttactgatattggatgttaattatgtaatatagGATTCAATTTCAAATGGAATCCCTTTGGAAGATTTTGGACATGGCCATCCTGATCCTAATCTAAC
upper sequence: AT5G51820.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv16s0022g02320.t01 (Vitis vinifera), 3'ss of exon 11
-----gtatgtattggacattatgatatatattagatttaactttgaacttctagacatttcagatgattgatgttaggcatgttttgtagGATTCAATTTCCAACGGAGTTCCCCTGGAAGATTTTGGGCATGGCCATCCTGATCCTAATTTGAC
| | |||| | ||| | || | | | | |||| | | | || || | ||| || ||| || | || || |||||||||||||| || ||||| || |||||||||||||||||||| ||||| ||||||||| | ||
gtatgttctatattaaaaattgtt-tagagaatgtttataacctaattactattgaagttcctgataatagatatt--gtataacttatagGATTCAATTTCAAATGGAGTACCTCTGGAAGATTTTGGGCATGGTCATCCAGATCCTAATCTTAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttaactttgaacttctagacatttcagatgattgatgttaggcatgttttgtagGATTCAATTTCCAACGGAGTTCCCCTGGAAGATTTTGGGCATGGCCATCCTGATCCTAATTTGAC
atgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtattggacattatgatatatattagatttaactttgaacttctagacatttcagatgattgatgttaggcatgttttgtagGATTCAATTTCCAACGGAGTTCCCCTGGAAGATTTTGGGCATGGCCATCCTGATCCTAATTTGAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA