Sequence
atgc intronic sequence ATGC exonic sequencegtaaaatttaccttgcttataaccaactatctggtggtctatccaatattaacccatgcttcctttgtcagAGTGCAGATGCTCAGCGGGAAACTGCTAGCCAGACGATAGATCTTATAAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G12370.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G12370.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA16G01660.1 (Glycine max), 3'ss of exon 4
----------------------------------------------------------------------------------gtaaaatttaccttgcttataaccaactatctggtggtctatccaatattaacccatgct-tcctttgtcagAGTGCAGATGCTCAGCGGGAAACTGCTAGCCAGACGATAGATCTTATAAAG
| | || || | | || | | | || ||| | | || | | ||| ||||||||||||||||||||| |||||||| || || || || || | |||||
gtagagagttcttccattagtctactatgtttgatggatggattttgatctcacatttgtttgtattattatgttttataggttggtcggttactcctttgtctttgaa-atataatctcttttctaatttctaattctgttatattttttcagAGTGCAGATGCTCAGCGAGAAACTGCCAGTCAAACAATTGAGTTGATAAAA
upper sequence: AT5G12370.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA07G05160.1 (Glycine max), 3'ss of exon 4
--------------------------------------------------------------------------------------------gtaaaatttaccttgcttataaccaactatctggtggtctatccaatat-taacccatgcttcctttgtcagAGTGCAGATGCTCAGCGGGAAACTGCTAGCCAGACGATAGATCTTATAAAG
| | || || | | || | | | || ||| | ||| || | ||| ||||||||||||||||||||| |||||||| || || || || || | |||||
gtagagagttcttccatgcgtcaactatgtttgatggatgcatttcgatctcacatttgtttgtattattattatgttttatgttttataggttggtcagttactcctttgtcgttgaa-atataatcacttttctaatttctaatcctcttatattttttcagAGTGCAGATGCTCAGCGAGAAACTGCCAGTCAAACAATTGAATTGATAAAA
upper sequence: AT5G12370.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv15s0046g02200.t01 (Vitis vinifera), 3'ss of exon 4
---------------------------------gtaaaatttaccttgcttataaccaactatctggtggtctatccaatattaacccatgcttcctttgtcagAGTGCAGATGCTCAGCGGGAAACTGCTAGCCAGACGATAGATCTTATAAAG
| | || ||| || | ||| | | ||||| | | ||| ||| | || ||| ||| |||||||||||||||| ||||| ||||||||||| || |||||||| || ||||||
gtatagtctatctatgcctgatgttgatacataaggagaaagacattgtttg-attcaattgtatggtgtcc--tttaat-ttatacaattctttctt-gtcagAGTGCAGATGCCCAGCGAGAAACTGCTAGTCAAACGATAGAGCTCATAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttataaccaactatctggtggtctatccaatattaacccatgcttcctttgtcagAGTGCAGATGCTCAGCGGGAAACTGCTAGCCAGACGATAGATCTTATAAAG
tattaac putative branch site (score: 1)
cccatgcttccttt CT-rich tract
aatattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaatttaccttgcttataaccaactatctggtggtctatccaatattaacccatgcttcctttgtcagAGTGCAGATGCTCAGCGGGAAACTGCTAGCCAGACGATAGATCTTATAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG