Sequence
atgc intronic sequence ATGC exonic sequencegtatggttatgatgatggcttgcgacttctgtattctttagctgctgcatttgtatgaatcaaatactaattcatttctaaatggttgtagACACTAATCTGTGGCCTACTTGGACTTCCTCCTTCGAATGGGGTCATTCCACAATCCCCTATGCACACAAAGAGTCTTGCAGTTCTTAAGAAGCAG
Basic information
species | Arabidopsis thaliana |
transcript | AT4G32510.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G32510.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA04G07390.1 (Glycine max), 3'ss of exon 7
gtatggt--tatgatgatggcttgcgacttctgtattctttagctgctgcatttg--tatgaatcaaatactaattcatttctaaatggttgt-agACACTAATCTGTGGCCTACTTGGACTTCCTCCTTCGAATGGGGTCATTCCACAATCCCCTATGCACACAAAGAGTCTTGCAGTTCTTAAGAAGCAG
||||||| | || | || | | |||| | ||| | || || | | || |||| ||| ||| ||||| | |||| | || || || | ||||| ||||||||||| ||||| ||| ||||||| ||||| ||||| ||||||||| | |||||||||| || || |
gtatggtattttgtctctagcatccttcttcctaaaacttggctttatgttattccttgttgataaaattgcctgacatatctttatggtccttagACTTTGATTTGCGGGATCCTTGGCCTTCCTCCTTCAAATGGAGTCCTTCCACAGTCCCCCATGCATACAAAGAGTTTAGCAGTTCTTAGGAGGCGG
upper sequence: AT4G32510.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA06G07480.1 (Glycine max), 3'ss of exon 8
--gtatggttatgatgatggcttgcgacttctgtattctttagctgctgcattt----gtatgaatcaaatactaattc----atttctaaatggttgt-agACACTAATCTGTGGCCTACTTGGACTTCCTCCTTCGAATGGGGTCATTCCACAATCCCCTATGCACACAAAGAGTCTTGCAGTTCTTAAGAAGCAG
| | || || | | | |||| || || ||| | || || | || || | || || || ||| |||||| | |||| || || || || | ||||| ||||||||||| ||||| ||| ||||||| ||||| ||||| ||||||||| | ||||| |||| || || |
gtatgttattttgtctctaacacccttcttcc-taaaacttggcttttatgttattcggtgttgataaagttatatatctggcatatctttatggttcttagACTCTGATTTGCGGGATCCTTGGCCTTCCTCCTTCCAATGGAGTCCTTCCACAGTCCCCCATGCATACAAAGAGTTTAGCAGTCCTTAGGAGGCGG
upper sequence: AT4G32510.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv04s0008g04980.t01 (Vitis vinifera), 3'ss of exon 7
gtatggttatgatgatggcttgcgacttctgtattctttagctgctgcatttgtatgaatcaaatactaattcatttctaaatggttgtagACACTAATCTGTGGCCTACTTGGACTTCCTCCTTCGAATGGGGTCATTCCACAATCCCCTATGCACACAAAGAGTCTTGCAGTTCTTAAGAAGCAG
|||| || ||| || | | | | || | | | | || | || | || || || | || || |||| || | ||||| | |||||| |||||||||| ||||| ||| | ||||||||||| |||||||| |||||||||||||| || ||||||| |
gtatt-ttctgacttcttattttgttatttatgtttctgacatattctatcta---gattttcatgcttctt--tcacttggctatttcagACTCTGCTTTGTGGGTTGCTTGGATTTCCTCCTTCAAATGGAGTCCTCCCACAATCCCCCATGCACACTAAGAGTCTTGCAGTCCTCAAGAAGCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttagctgctgcatttgtatgaatcaaatactaattcatttctaaatggttgtagACACTAATCTGTGGCCTACTTGGACTTCCTCCTTCGAATGGGGTCATTCCACAATCCCCTATGCACACAAAGAGTCTTGCAGTTCTTAAGAAGCAG
aaatactaattcattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatggttatgatgatggcttgcgacttctgtattctttagctgctgcatttgtatgaatcaaatactaattcatttctaaatggttgtagACACTAATCTGTGGCCTACTTGGACTTCCTCCTTCGAATGGGGTCATTCCACAATCCCCTATGCACACAAAGAGTCTTGCAGTTCTTAAGAAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC