Sequence
atgc intronic sequence ATGC exonic sequencegttagagccaggaaaccactctatgtgccgttttatgttatattgttctgtttcatgattctcttattttattttgttttgtttacagATTGAAGGAGCCTTTGTTCAAGGACTTGGTTTCTTCATGCTTGAAGAGTTCCTAATGAACTCAGACGGTCTCGTGGTAACAGACAGCACATGGACTTACA
Basic information
species | Arabidopsis thaliana |
transcript | AT5G20960.2 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G20960.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv18s0041g02390.t01 (Vitis vinifera), 3'ss of exon 7
-----------gttagagccaggaaaccactctatgtgccgttttatgttatattgttctgttt-catgattctcttattttattttgttttgtttacagATTGAAGGAGCCTTTGTTCAAGGACTTGGTTTCTTCATGCTTGAAGAGTTCCTAATGAACTCAGACGGTCTCGTGGTAACAGACAGCACATGGACTTACA
| | |||| | | | | || | || || || | || ||| ||| | | | || ||||||||| |||||||| |||||||||||| |||| || || |||||||| || | | || || |||| || || ||||| || | |||||||||| ||||
tgttcaatgtttccctattcttaaaacttgtgtttatttaattgattattggtttatttgatccatgtggctctaacattctttctgagttgctttacagATAGAAGGAGCTTTTGTTCAAGGAATTGGGTTTTTTATGCTTGAGGAATACACAACTAATGCAGATGGACTGGTGGTCACTAAAGGCACATGGACATACA
upper sequence: AT5G20960.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv18s0041g02430.t01 (Vitis vinifera), 3'ss of exon 8
----gttagagccaggaaaccactctatgtgccgtttt------atgttatattgttctgtttcatgattctct--tattttattttgttttgtttacagATTGAAGGAGCCTTTGTTCAAGGACTTGGTTTCTTCATGCTTGAAGAGTTCCTAATGAACTCAGACGGTCTCGTGGTAACAGACAGCACATGGACTTACA
|| || ||| || |||| | || | | || | | | || | ||| |||| |||| | | | || ||||||||| |||||||| |||||||||||| |||| || || ||||| ||||||| | || || ||||| || || ||||| || || |||||||||| ||||
tactgtaggatgtttataactgttcaatgtttccttatccttaaaacttgtgcttatttgatccatatgcctctaatattctttctgagttgctttacagATAGAAGGAGCTTTTGTTCAAGGAATTGGGTTTTTTATGCTGGAAGAGTACACAACTAATTCAGATGGACTGGTGGTCACCGAAGGCACATGGACATACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatgttatattgttctgtttcatgattctcttattttattttgttttgtttacagATTGAAGGAGCCTTTGTTCAAGGACTTGGTTTCTTCATGCTTGAAGAGTTCCTAATGAACTCAGACGGTCTCGTGGTAACAGACAGCACATGGACTTACA
ttctcttattttattt CT-rich tract
attctcttattttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagagccaggaaaccactctatgtgccgttttatgttatattgttctgtttcatgattctcttattttattttgttttgtttacagATTGAAGGAGCCTTTGTTCAAGGACTTGGTTTCTTCATGCTTGAAGAGTTCCTAATGAACTCAGACGGTCTCGTGGTAACAGACAGCACATGGACTTACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA