Sequence
atgc intronic sequence ATGC exonic sequencegttccttgcttcatcatctgtttcattcttcattcatcttccctaactctctcttcttgcctgccttacttatacgctttaccttaaactgttaacagAATGATTTGGTACACGGTTGGGGTCTTGACTTTGCACTCAGAAGATGTGTTGAG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G67850.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G67850.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA18G01710.1 (Glycine max), 3'ss of exon 11
--------------------gttcc--ttgcttcatcatctgtt---------tcattcttcattcatcttccctaactctctcttcttgcctgccttacttatacgctt-taccttaaactgttaacagAATGATTTGGTACACGGTTGGGGTCTTGACTTTGCACTCAGAAGATGTGTTGAG
|| | |||||| | | || | || || || | ||| | || |||| || || || | || |||| || |||||||| ||||| ||||| ||||||||||| ||||| || |||||||||||||||
gttgactgattaatcctgaagtcctaattgctttaaaagatgcccttgactagttgttttttatgatgcatccttgacaagttctttaagcacttagtaaaattatggttgtaccacttgacattg-cagAATGACTTGGTCCACGGGTGGGGTCTTGATTTTGCTCTTAGAAGATGTGTTGAG
upper sequence: AT1G67850.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA08G14040.1 (Glycine max), 3'ss of exon 11
------------------gttccttgctt-catcatctgtttcattcttcattcatcttccctaactctctc-ttcttgcctgcc--ttacttata--cgctttaccttaaactgttaacagAATGATTTGGTACACGGTTGGGGTCTTGACTTTGCACTCAGAAGATGTGTTGAG
||| || ||| || || || || | | ||| | | | ||| || | || | ||| |||| | | | | | || |||||||||||||| || || ||||| ||||| ||||| || |||| ||||||||||
gttaaatgttttctctttattctttttaaatatccattggttagttgtttaat-gtctgtttaagcgcactcgttaaagtctaacaattaattatgattgttccattctgggcattt--cagAATGATTTGGTCCATGGCTGGGGCCTTGATTTTGCTCTTAGAAAATGTGTTGAG
upper sequence: AT1G67850.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA11G37770.1 (Glycine max), 3'ss of exon 11
gttccttgct--tcatcatctgtttcattcttcattcatcttccctaactctctcttcttgcctgccttacttatacgct--ttaccttaaactgttaacagAATGATTTGGTACACGGTTGGGGTCTTGACTTTGCACTCAGAAGATGTGTTGAG
||| || | || | | | | | || | ||| | | | ||||| ||| | | | | || | |||||||| ||||| || || ||||||||||| ||||| || |||| ||||||||||
gttgactgttaatcctaaagtcctaattgttttaaaagatgtccttgataagttgttctttaagcacttggtaaaattatgattgtaccacttgacatgcagAATGACTTGGTCCATGGGTGGGGTCTTGATTTTGCTCTTAGAAAATGTGTTGAG
upper sequence: AT1G67850.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA05G30830.1 (Glycine max), 3'ss of exon 11
-----------gttccttgcttcatcatctgt-ttcattcttcattca-tcttccctaactctctc-ttcttgcctgcc--ttacttatacgctttaccttaaactgttaacagAATGATTTGGTACACGGTTGGGGTCTTGACTTTGCACTCAGAAGATGTGTTGAG
|| || | | | | | |||| | || | | | | | | ||| || | || | ||| |||| | || || | |||||||||||||| || || ||||| ||||| ||||| || |||| ||||||||||
gttaaatgtttactctttattcttttttaaatatccattggttgtttaatgtctgtttatgcactcgttagagtctaacaattaattatgattgtaacattctgggcatttcagAATGATTTGGTCCATGGCTGGGGCCTTGATTTTGCTCTTAGAAAATGTGTTGAG
upper sequence: AT1G67850.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv01s0137g00770.t01 (Vitis vinifera), 3'ss of exon 11
--gttccttgcttcatcatctgtttcattcttcattcatcttccctaactctctcttcttgcctgccttacttatacgctttaccttaaactgttaacagAATGATTTGGTACACGGTTGGGGTCTTGACTTTGCACTCAGAAGATGTGTTGAG
| | | ||| | | | | | ||| | | | | | | | || | ||| || || | | | |||||||| ||||||| |||||||||||||||||||| |||||||||||||| |||
gtatatatatcctcaaatttagaattagtaagttctcagttgctccagttgacctgtta---ctatcaagtttaagtgcctttctgtggg--aattgcagAATGACCTGGTACATGGTTGGGGTCTTGACTTTGCTCTCAGAAGATGTGTAGAG
upper sequence: AT1G67850.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv00s0187g00030.t01 (Vitis vinifera), 3'ss of exon 6
--gttccttgcttcatcatctgtttcattcttcattcatcttccctaactctctcttcttgcctgccttacttatacgctttaccttaaactgttaacagAATGATTTGGTACACGGTTGGGGTCTTGACTTTGCACTCAGAAGATGTGTTGAG
| || | ||| | | | | | ||| | | | || | | | || | ||| | || | | | |||||||| ||| ||| |||||||||||||||||||| || ||||||||||| |||
gtatatctatcctcaaatttagaattagtaagttctcagttgctccaattgacctgtta---ctatcaagtttaagtgtctttctgtggg--aattgcagAATGACCTGGCACATGGTTGGGGTCTTGACTTTGCTCTTAGAAGATGTGTAGAG
upper sequence: AT1G67850.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv13s0106g00570.t01 (Vitis vinifera), 3'ss of exon 2
--gttccttgcttcatcatctgtttcattcttcattcatcttccctaactctctcttcttgcctgccttacttatacgctttaccttaaactgttaacagAATGATTTGGTACACGGTTGGGGTCTTGACTTTGCACTCAGAAGATGTGTTGAG
| | | ||| | | | | | ||| | | | | | | | || | ||| || || | | | ||||||||| ||||||| |||||||||||| ||||||| || ||||||||||| |||
gtatatatatcctcaaatttagaattagtaagttctcagttgctccagttgacctgtta---ctatcaagtttaagtgcctttctatggg--aattacagAATGACCTGGTACATGGTTGGGGTCTTAACTTTGCTCTTAGAAGATGTGTAGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taactctctcttcttgcctgccttacttatacgctttaccttaaactgttaacagAATGATTTGGTACACGGTTGGGGTCTTGACTTTGCACTCAGAAGATGTGTTGAG
ttacttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttccttgcttcatcatctgtttcattcttcattcatcttccctaactctctcttcttgcctgccttacttatacgctttaccttaaactgttaacagAATGATTTGGTACACGGTTGGGGTCTTGACTTTGCACTCAGAAGATGTGTTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG