Sequence
atgc intronic sequence ATGC exonic sequence...gccaccttttgtttcaaaagcttgtgaatgagtactgcacaatacaaaataggttttaaagaagtttcagttgtaaagaaaaccaagttatgtcctatagGATCCATGGTGGAACCCAGCGGTAGAGGAACAAGCTGTTATGCGTATTCATCGTATAGGGCAAACTAAGGAAGTCAAAATCAGAAGATTCATCGTTAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G22750.1 |
intron # | 18 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G22750.1 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: GLYMA17G05390.1 (Glycine max), 3'ss of exon 18
gccaccttttgtttcaaaagcttgtga----atgagtactgcacaatacaaaatag--gttttaaagaagtttcagttgtaaagaaaaccaagttatgtcctatagGATCCATGGTGGAACCCAGCGGTAGAGGAACAAGCTGTTATGCGTATTCATCGTATAGGGCAAACTAAGGAAGTCAAAATCAGAAGATTCATCGTTAAG
| | | | | | |||| |||| || || | ||| || ||||| || | || | | || || || | | | | |||| ||||||||||| || || || |||||||||||||||||||||||||||||||| || ||||| ||| | || || ||| | || || || |||
----tgtataaaatggatatatagtgacattatgactattgtcatttggaaagtatttgttttttagtaattatggat-tattgataatttt-tcactttggacagGACCCATGGTGGAATCCTGCTGTTGAGGAACAAGCTGTTATGCGTATTCATCGTATTGGACAAACAAAGAAGGTTGCCATTAGACGGTTTATTGTGAAG
upper sequence: AT5G22750.1 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: GLYMA12G30540.1 (Glycine max), 3'ss of exon 19
gccaccttttgtttcaaaagcttgtgaatgagtactgcacaatacaaaata---ggttttaaagaagtttcagttgtaaagaaaaccaagttatgtcctatagGATCCATGGTGGAACCCAGCGGTAGAGGAACAAGCTGTTATGCGTATTCATCGTATAGGGCAAACTAAGGAAGTCAAAATCAGAAGATTCATCGTTAAG
| | | || | | || | || | || || | ||| || | |||| || | || | | || || | | | | | |||| ||||||||||| || || || |||||||||||||||||||||||||||||||| || ||||| ||| | || || ||| | || || || |||
ccaatccaatgggtatatag-tgacatattattattgtcatttgtaaagtatttgtttttttagtaattatggat-tattgatgatttt-tcactttggacagGACCCATGGTGGAATCCTGCTGTTGAGGAACAAGCTGTTATGCGTATTCATCGTATTGGACAAACAAAGAAGGTTGCCATTAGACGGTTTATTGTGAAG
upper sequence: AT5G22750.1 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: Vv06s0061g01190.t01 (Vitis vinifera), 3'ss of exon 18
-gccaccttttgtttcaaaagcttgtgaatgagtactgcacaatacaaaataggttttaaagaagtttcagttgtaaagaaaaccaagttatgtcctat--agGATCCATGGTGGAACCCAGCGGTAGAGGAACAAGCTGTTATGCGTATTCATCGTATAGGGCAAACTAAGGAAGTCAAAATCAGAAGATTCATCGTTAAG
| | | ||| ||| || | | | | || || || ||| | | | || | | || | || | |||||||||||||||| ||||| ||||||||||||||||||||||| ||||||||||| || ||||| || || | |||| | ||||| || |||
tagtattccgtctctcactgttctgtttccatgttcaatatgtttcttgttaagt---aactgagtgtttgataataatttctcatgggcattttctttgaagGATCCATGGTGGAATCCAGCTGTAGAGGAACAAGCTGTTATGCGGATTCATCGTATTGGACAAACAAAAAGGGTAATGATCAAGCGGTTCATTGTGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaataggttttaaagaagtttcagttgtaaagaaaaccaagttatgtcctatagGATCCATGGTGGAACCCAGCGGTAGAGGAACAAGCTGTTATGCGTATTCATCGTATAGGGCAAACTAAGGAAGTCAAAATCAGAAGATTCATCGTTAAG
ttttaaagaagttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gccaccttttgtttcaaaagcttgtgaatgagtactgcacaatacaaaataggttttaaagaagtttcagttgtaaagaaaaccaagttatgtcctatagGATCCATGGTGGAACCCAGCGGTAGAGGAACAAGCTGTTATGCGTATTCATCGTATAGGGCAAACTAAGGAAGTCAAAATCAGAAGATTCATCGTTAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - caaaagc
- - - - - - - - - - - - - - - - - - - - -atacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - taaagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaagaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaccaag