Sequence
atgc intronic sequence ATGC exonic sequencegtgttatttttatttgcgtttctttatgatgctaactgttgatttacatgaccatgaattttaaattgaaaaattatgtacagATTAGTCATCAGTGTATGATGAAAGAGTTACAGCGGTTTCCAGTCCTGCAAAAGCGCATGGATGAGGTTATTGGGAACTTTCTGCGAGAAGGTCTTGAAC
Basic information
species | Arabidopsis thaliana |
transcript | AT2G14120.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G14120.3 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA15G06380.1 (Glycine max), 3'ss of exon 11
---gtgttatttttatttgcgtttctttatgatgctaactgttgatttacatgaccatgaattttaaattgaaaaattatgtacagATTAGTCATCAGTGTATGATGAAAGAGTTACAGCGGTTTCCAGTCCTGCAAAAGCGCATGGATGAGGTTATTGGGAACTTTCTGCGAGAAGGTCTTGAAC
| || | | |||| | | || | || || |||| ||| || | |||| | || | | ||||| || |||| |||||| ||| || | ||||| || || || ||| |||||||||||||| ||||| ||||||||||| |||||||| |||||||
gtaggaagatggctttaaaagtttgtcttctctgttgtct--tgcttta--tgaacaatgtgtctaaaaaaatcccttctcttcagATCAGCCATCGCTGTATGGTGACTGAACTGCAGCGATTCCCTTTCTTGCGGAAGCGCATGGATGAAGTTATAGGGAACTTTCTACGAGAAGGCCTTGAAC
upper sequence: AT2G14120.3 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA13G32940.1 (Glycine max), 3'ss of exon 11
gtgttatttttatttgcgtttctttatgatgctaactgttgatttacatgaccatgaattttaaattgaaaaa-ttatgtacagATTAGTCATCAGTGTATGATGAAAGAGTTACAGCGGTTTCCAGTCCTGCAAAAGCGCATGGATGAGGTTATTGGGAACTTTCTGCGAGAAGGTCTTGAAC
|| | | || ||| | || |||| | |||| | |||| || || | | ||||| || |||| |||||| ||| || | ||||| || || || ||| |||||||||||||| ||||| ||||||||||| |||||||| |||||||
gtaggaacatggctt-taaaagtttgtcatctctgctgtcttgctttatgaagaatgtgcctaaacaaaatcccttctcttcagATCAGCCATCGCTGTATGGTGACTGAACTGCAGCGATTCCCTTTCTTGCGGAAGCGCATGGATGAAGTTATAGGGAACTTTCTACGAGAAGGCCTTGAAC
upper sequence: AT2G14120.3 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA08G07160.1 (Glycine max), 3'ss of exon 11
--gtgttatttttatttgcgtttctttatgatgctaactgttgatttacatgaccatgaattttaaattgaaaaa--ttatgtacagATTAGTCATCAGTGTATGATGAAAGAGTTACAGCGGTTTCCAGTCCTGCAAAAGCGCATGGATGAGGTTATTGGGAACTTTCTGCGAGAAGGTCTTGAAC
| || | | |||| || | | | | ||| | | |||| || | |||||| ||| || | | ||||| || ||||| |||||| | | || || |||||||| || || || ||||||||||||||| ||||||||||||||| | |||||||| || ||||
gtaagggtttatgacttgctatttctgct--tctttact--tcaccaccatgcaaatatgtgctaaattaaaatctcttctcttcagATCAGCCATCACTGTATGGTCACTGAATTGCAGCGGTTCCCTTTCTTGAGAAAGCGCATGGATGAAGTTATTGGGAACTTTTTACGAGAAGGCCTAGAAC
upper sequence: AT2G14120.3 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: Vv03s0038g00970.t01 (Vitis vinifera), 3'ss of exon 12
gtgttatttttatttgcgtttctttatgatgctaactgttgatttacatg-accatgaattttaaattgaaaaattatgtacagATTAGTCATCAGTGTATGATGAAAGAGTTACAGCGGTTTCCAGTCCTGCAAAAGCGCATGGATGAGGTTATTGGGAACTTTCTGCGAGAAGGTCTTGAAC
|| | || | | |||||| | || | ||| ||| | | | || | | | | | ||||| || |||| ||| || ||| || | ||||||||||| | ||| |||||||||||| || ||||| || |||||| |||||||||| |||||||
gtagaaaattcttacttggcattttatgct-cttggggcactattatatgcatctttaacactgatcaagtgattccactccagATAAGCCATCGCTGTCTGGTGAGTGAAATGCAGCGGTTTCCTATTCTGAGAAAGCGCATGGACGAAGTTATGGGAAACTTTTTGCGAGAAGGCCTTGAAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgctaactgttgatttacatgaccatgaattttaaattgaaaaattatgtacagATTAGTCATCAGTGTATGATGAAAGAGTTACAGCGGTTTCCAGTCCTGCAAAAGCGCATGGATGAGGTTATTGGGAACTTTCTGCGAGAAGGTCTTGAAC
atgaattttaaattga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgttatttttatttgcgtttctttatgatgctaactgttgatttacatgaccatgaattttaaattgaaaaattatgtacagATTAGTCATCAGTGTATGATGAAAGAGTTACAGCGGTTTCCAGTCCTGCAAAAGCGCATGGATGAGGTTATTGGGAACTTTCTGCGAGAAGGTCTTGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA