Sequence
atgc intronic sequence ATGC exonic sequence...aatcctccattcactcaaatacctcatctaaaaactgctttttgacttaattgcctctgttggacacttggactctaagtttagctgtctttcctgtcagGGTGTGGAATTACGAGGAAGCAACTCTTCTTAATGGCTTTGACAATAACGATTTTCCTGACAAAGGAATTTCAAATCTCTGCCTTGTCAATGAACTTGAT
Basic information
species | Arabidopsis thaliana |
transcript | AT5G01770.1 |
intron # | 17 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G01770.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: GLYMA09G41510.1 (Glycine max), 3'ss of exon 17
----aatcctccattcactcaaatacctcatctaaaaactgctttttgacttaattgcctctgttggacacttggactctaagtttagctgtctttcctgtcagGGTGTGGAATTACGAGGAAGCAACTCTTCTTAATGGCTTTGACAATAACGATTTTCCTGACAAAGGAATTTCAAATCTCTGCCTTGTCAATGAACTTGAT
||| | || | | | | |||| |||||| ||||| ||| |||| || || || |||| | ||||| | ||||| ||||| || || || | ||||| ||| | ||||||||||||||||||||||| || ||||||||||| ||||| ||||||
gcagaatatctttctggtcttgatgaatgtcattgctgttagtctttgt----attgcccaatttggatttttgttggctaatgttctttggagttttccacagGATATGGAACCATGAGGAGGCAACACTACTGAACAGTTTTGATAATCATGATTTTCCTGACAAAGGAATTTCTAAGCTCTGCCTTGTAAATGAGCTTGAT
upper sequence: AT5G01770.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: GLYMA18G44210.1 (Glycine max), 3'ss of exon 17
----aatcctccattcactcaaatacctcatctaaaaactgctttttgacttaattgcctctgttggacacttggactctaagtttagctgtctttcctgtcagGGTGTGGAATTACGAGGAAGCAACTCTTCTTAATGGCTTTGACAATAACGATTTTCCTGACAAAGGAATTTCAAATCTCTGCCTTGTCAATGAACTTGAT
||| | | || | | | | | |||| |||||| ||||| ||| |||| || || || |||| | ||||| | ||||| || || || ||||| | ||||| ||| | |||||||| |||||||||||||| || ||||||||||| ||||| ||||||
tcaaaatatttttctggtcttgatgaatgttgttgctgttagtctttgt----attgcccaatttggaattttgttagctaatgttctttggagttttccacagGATATGGAACCATGAGGAGGCTACACTGCTTAACAGTTTTGATAATCATGATTTTCCCGACAAAGGAATTTCTAAGCTCTGCCTTGTAAATGAGCTTGAT
upper sequence: AT5G01770.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: Vv08s0058g00890.t01 (Vitis vinifera), 3'ss of exon 17
-aatcctccattcactcaaatacctcatctaaaaactgctttttgacttaattgcctctgttggacacttggactctaagtttagctgtctttcctgtcagGGTGTGGAATTACGAGGAAGCAACTCTTCTTAATGGCTTTGACAATAACGATTTTCCTGACAAAGGAATTTCAAATCTCTGCCTTGTCAATGAACTTGAT
|| | | | | | | | ||| | | | | || || | || ||| | ||| || | | || | ||||| | |||||||| || ||||| || ||||| || ||||||||||| | |||||||||| ||||||||||| || ||||||||||| || || ||||||
ttatataagcctaaattaggtgtttgaatggctcacttatcatcatttcatttatcttttctgtttgcttatgcattaa-ttcttcatttttgtttttcagGATTTGGAATTATGATGAAGCTACCCTTCTCAACAGCTTTGACAATCATAATTTTCCTGATAAAGGAATTTCTAAACTCTGCCTTGTGAACGAGCTTGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttaattgcctctgttggacacttggactctaagtttagctgtctttcctgtcagGGTGTGGAATTACGAGGAAGCAACTCTTCTTAATGGCTTTGACAATAACGATTTTCCTGACAAAGGAATTTCAAATCTCTGCCTTGTCAATGAACTTGAT
ctgtctttcctgtc CT-rich tract
taagttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatcctccattcactcaaatacctcatctaaaaactgctttttgacttaattgcctctgttggacacttggactctaagtttagctgtctttcctgtcagGGTGTGGAATTACGAGGAAGCAACTCTTCTTAATGGCTTTGACAATAACGATTTTCCTGACAAAGGAATTTCAAATCTCTGCCTTGTCAATGAACTTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - ccattca
- - - - - - - -caaatac
- - - - - - - - - - - - - - taaaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -actctaa