Sequence
atgc intronic sequence ATGC exonic sequencegtaaatatcacatgattgagtgtatactataagcttaccttgtatttatcaaagtctttgctctataatacaatttcgttgttgttgtctttctgcaaagTATCTCGATGGAACAACTGATATAACCCGAACGGTTCACTTTGGAAAACCTTCAGCTCATGAAAAGGAATGCTATACTGCG
Basic information
species | Arabidopsis thaliana |
transcript | AT4G36760.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G36760.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA01G38410.3 (Glycine max), 3'ss of exon 10
------gtaaatatcacatgattg-agtgtatactataagcttaccttgtatttatcaaagtctttgctctataata-caatttcgttg--ttgttgtctttctgcaaagTATCTCGATGGAACAACTGATATAACCCGAACGGTTCACTTTGGAAAACCTTCAGCTCATGAAAAGGAATGCTATACTGCG
|| | | | || || || || || || | ||| || ||| | || | || || | || | | | || || | |||| |||||||| ||||||||||| ||||| || ||||| ||||| ||||| |||||||| |||| ||||| | || ||||| ||
gtctgtctagtttttaactgttttcagcatagacatatagtgaattatgttgttttcatgtttttgcattcatgatctctatattgacaactggtggtgtctctg--aagTATCTAGATGGAACAACAGATATTACACGAACAGTTCATTTTGGTAAACCTTCGACTCACGAAAAAGCGTGTTATACAGCA
upper sequence: AT4G36760.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA11G06900.1 (Glycine max), 3'ss of exon 10
------------gtaaata--tcacatgattgagtgtatactataagcttaccttgtatttat---caaagtctttgctctataatacaatttcgttgttgttgtc--tttctgcaaagTATCTCGATGGAACAACTGATATAACCCGAACGGTTCACTTTGGAAAACCTTCAGCTCATGAAAAGGAATGCTATACTGCG
| || | | ||| ||||| | | || || | ||| |||| || || | || || | | | | | || | ||| |||||||| ||||||||||| ||||| || ||||| ||||| ||||| |||||||| |||| ||||| | || ||||| ||
gtctgtctaatttttaacagtttacagcattgacttt-tataatgaa-ttatgttgttttcatgttttgcattcatgaccttcacctctgtatattgacaactggtggtgtctctgaagTATCTAGATGGAACAACAGATATTACACGAACAGTTCATTTTGGTAAACCTTCGACTCACGAAAAAGCGTGTTATACAGCA
upper sequence: AT4G36760.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv04s0023g01300.t01 (Vitis vinifera), 3'ss of exon 10
------------------------------gtaaatatcacatgattgagtgtatactataagcttaccttgtat-ttatcaaagtctttgctctataatacaatttcgttgttgttgtctt-tctgcaaagTATCTCGATGGAACAACTGATATAACCCGAACGGTTCACTTTGGAAAACCTTCAGCTCATGAAAAGGAATGCTATACTGCG
|| || | | || |||| ||||| | || | | ||| | || ||| ||| || || || | | | ||| ||||||| |||||||||||||||||||| ||||| ||||| ||||||||||||||| | ||||| || | |||||||||||||
gtttgccaactatcttgaattgtttgggatatagccattaaccaaagaaggcaatacaataagtccattttttgtattaactttgtgtttatgatattgctattctttactgatgatatggtgtctttgaagTATCAAGATGGAACAACTGATATAACTCGAACTGTTCATTTTGGAAAACCTTCATCACATGAGAAAGCATGCTATACTGCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatcaaagtctttgctctataatacaatttcgttgttgttgtctttctgcaaagTATCTCGATGGAACAACTGATATAACCCGAACGGTTCACTTTGGAAAACCTTCAGCTCATGAAAAGGAATGCTATACTGCG
ttgtctttct CT-rich tract
tctataatacaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaatatcacatgattgagtgtatactataagcttaccttgtatttatcaaagtctttgctctataatacaatttcgttgttgttgtctttctgcaaagTATCTCGATGGAACAACTGATATAACCCGAACGGTTCACTTTGGAAAACCTTCAGCTCATGAAAAGGAATGCTATACTGCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA