Sequence
atgc intronic sequence ATGC exonic sequence...tttcttctctttttccctctccgttctttgcaaccagaacctgtatttgaaagataccatatttatcattaaccgttgactttattttgagtaaatgcagAGGTTAATATTTGAAGAACCTGCAAGTGGAGTAAGAAAGATAGTCCTAGCCACTAATATCGCAGAAACGAGCATCACGATCAATGATGTTGCTTTTGTCA
Basic information
species | Arabidopsis thaliana |
transcript | AT2G01130.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G01130.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA20G25800.1 (Glycine max), 3'ss of exon 13
-------------------------------------------------------------------------------------tttcttctctttttccctctccgttctttgc-aaccagaacctgtatttgaaa-gataccatatttatcattaac-----cgttgactt-tattttgagtaa------atgcagAGGTTAATATTTGAAGAACCTGCAAGTGGAGTAAGAAAGATAGTCCTAGCCACTAATATCGCAGAAACGAGCATCACGATCAATGATGTTGCTTTTGTCA
||| | || || || |||| | | | | || || | || | |||| || || | | || || || || || |||||||| |||||||||||||| |||| | |||||| ||||| ||||| ||| | || ||||| || |||||||| |||||||| |||||||||| ||||||
gtaatgttctgtctgttgatgactactttgttagagttgattttatacaatctgtatgtatgatgatttgttgtctgaaaatagttttagcaatatgtttgtgcttagtcttttgttgaagaaaggtggcatgtgccttgtctccctggttatgatcaatatttacatagatttacataatggatatggcaatatgcagAGATTAATATTTGAAGAGCCTGAAGATGGAGTTAGAAAAATAGTGCTAACAACAAATATTGCTGAAACGAGTATCACGATAAATGATGTTGTTTTTGTTC
upper sequence: AT2G01130.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA09G18490.1 (Glycine max), 3'ss of exon 5
tttcttctctttttccctctccgttctttgcaaccagaacctgtatttgaaagataccatatttatcattaaccgttgact---ttattttgagtaaatgcagAGGTTAATATTTGAAGAACCTGCAAGTGGAGTAAGAAAGATAGTCCTAGCCACTAATATCGCAGAAACGAGCATCACGATCAATGATGTTGCTTTTGTCA
|| | | || || || || | ||| | | ||| ||| | || | | ||| | ||| |||||||||||||||||||| ||||||| | ||||||| |||| ||||| ||||| || ||||| || ||||| || ||||| || |||||| ||| ||||||
--tcagataataaagaaactt-gtgtttaccattgtagagttgtggtatttaaccctcatgcttacaagcaatttcttgataaactatatattgtatatgcagAGGTTAATATTTGAGGAACCTGAAGATGGAGTACGAAAAATAGTGCTAGCAACAAATATTGCTGAAACTAGTATCACAATAAATGATATTGTTTTTGTTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgaaagataccatatttatcattaaccgttgactttattttgagtaaatgcagAGGTTAATATTTGAAGAACCTGCAAGTGGAGTAAGAAAGATAGTCCTAGCCACTAATATCGCAGAAACGAGCATCACGATCAATGATGTTGCTTTTGTCA
tttattttgagtaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttcttctctttttccctctccgttctttgcaaccagaacctgtatttgaaagataccatatttatcattaaccgttgactttattttgagtaaatgcagAGGTTAATATTTGAAGAACCTGCAAGTGGAGTAAGAAAGATAGTCCTAGCCACTAATATCGCAGAAACGAGCATCACGATCAATGATGTTGCTTTTGTCA
- -cttctct
- - - - - - - -cctctcc
- - - - - - - - - - - - - - - -aaccaga
- - - - - - - - - - - - - - - - - - - - - - - - - - gatacca