Sequence
atgc intronic sequence ATGC exonic sequencegtaccgtaaatcattatttgccttatatctgtccactttgcgtttgtgatactgatgatctctttttctgttatgttctcacccagGTTGTATTACTCTGCTCGTGCGTGCTGGCTTTCGTCTTAAACTACTGCATTTTCCTTAACACCACTCTCAATTCAGCTTTGACGCAGACAATTTGTGGCA
Basic information
species | Arabidopsis thaliana |
transcript | AT4G32272.2 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G32272.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA17G32030.1 (Glycine max), 3'ss of exon 7
------gtaccgt--aaatcatta-tttgccttatatct--gtccactttgcgtttgtgatactgatgatct---ctttttctgttatgttctcacccagGTTGTATTACTCTGCTCGTGCGTGCTGGCTTTCGTCTTAAACTACTGCATTTTCCTTAACACCACTCTCAATTCAGCTTTGACGCAGACAATTTGTGGCA
| | || | ||||| | | ||| || | || || || | |||| || ||| | | ||||| | || | | | | |||||| | || || | || ||||||||||| ||| |||| || ||||| ||||| || ||||| || || ||||||||| |||| |||||||||||||| |
agttgccttctgtctatatcatcaatctgcatttaaacttggtttcctcttaatttgaaattatgagaagttgtaatttttgtattttctatttatgcagGTTATTTTGCTTTTTTCCTGCGTGCTGGCATTCTTCTTGAATTACTGTATTTTTCTGAACACAACACTAAATTCAGCTGTGACACAGACAATTTGTGGTA
upper sequence: AT4G32272.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA14G14360.1 (Glycine max), 3'ss of exon 7
--------gtaccgtaaatcattattt-gccttatatctg-tccactttgcgtttgtgatactgatgatct----ctttttctgttatgttctcacccagGTTGTATTACTCTGCTCGTGCGTGCTGGCTTTCGTCTTAAACTACTGCATTTTCCTTAACACCACTCTCAATTCAGCTTTGACGCAGACAATTTGTGGCA
|| | | |||| | || ||| | || | || | |||| || ||| | | |||| || | |||| | |||||| | || || | || ||| ||||||| ||| |||| || ||||| ||||| || ||||| || || ||||||||| |||| |||||||||||||| |
ttctgtctatatcatcaatctgcaccaagctttaaacttggtttcctcttaatttgaaattatgagaagttgtaatttttgtattttttttcttatgcagGTTATTTTGCTTTTTTCCTGCATGCTGGCATTCTTCTTGAATTACTGTATTTTTCTGAACACAACACTAAATTCAGCTGTGACACAGACAATTTGTGGTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccactttgcgtttgtgatactgatgatctctttttctgttatgttctcacccagGTTGTATTACTCTGCTCGTGCGTGCTGGCTTTCGTCTTAAACTACTGCATTTTCCTTAACACCACTCTCAATTCAGCTTTGACGCAGACAATTTGTGGCA
ttctcac putative branch site (score: 2)
tctctttttctgttat CT-rich tract
tcttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaccgtaaatcattatttgccttatatctgtccactttgcgtttgtgatactgatgatctctttttctgttatgttctcacccagGTTGTATTACTCTGCTCGTGCGTGCTGGCTTTCGTCTTAAACTACTGCATTTTCCTTAACACCACTCTCAATTCAGCTTTGACGCAGACAATTTGTGGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT