Sequence
atgc intronic sequence ATGC exonic sequencegtgattggttatctgtcgtccgctgttccattatttacatccctcctgtgtactcatgtgctccattgcaatgattagGTCTATAACAAATTAGTGTTTGGAAACCACTCATTTCGACCCAACCAAAGAGAGATCATTAATGCTACAATGAGTGGTTGTGATGTTTTTGTTTTGATGC
Basic information
species | Arabidopsis thaliana |
transcript | AT1G60930.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G60930.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM2G319573_T03 (Zea mays), 3'ss of exon 6
gtgattggttatctgtcgtccgctgttccattatttacatc-------cctcctgtgtactcatgtgctccattgcaatgattagGTCTATAACAAATTAGTGTTTGGAAACCACTCATTTCGACCCAACCAAAGAGAGATCATTAATGCTACAATGAGTGGTTGTGATGTTTTTGTTTTGATGC
|| ||| || | | || | || ||||||||| | | || |||| | || | |||| | ||| | | |||| | |||||||||||| || || || ||||||||| |||| || || ||||| ||||||||||| ||||||||||||||||||||
gttatt--ttcttcagcatc-attttttaattatttacgccatcactgatttttgaatactattaacctttagtgca-tatccagGCCAAGAACAGAAATAAGTTTGGAAACCATTCTTTCCGCCCCAACCAACGAGAAATAATCAATGCCACAATGAGTGGGCATGATGTTTTTGTTTTGATGC
upper sequence: AT1G60930.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA08G20070.1 (Glycine max), 3'ss of exon 10
gtgattggtt-atctgtcgtccgctgttccattatttacatccctcctgtgtactcatgtgctccattgcaatgattagGTCTATAACAAATTAGTGTTTGGAAACCACTCATTTCGACCCAACCAAAGAGAGATCATTAATGCTACAATGAGTGGTTGTGATGTTTTTGTTTTGATGC
|| || | | | | ||| | | |||| | | | | | || | || | | || || |||||| |||| ||| ||| |||||||| ||||||||||| ||||| |||||||||||||||||||| |||||||||| ||||||||||||||| ||||||
gtatttaactgaattattgtcagtt--tccagtgaatgtaactcatctttataactttttccttactt-------ttagGTTAATAATAAAAAAGTATTTGGAAATCACTCATTTCGCCCCAATCAAAGAGAGATCATTAATGCCTCAATGAGTGGATGTGATGTTTTTGTTCTGATGC
upper sequence: AT1G60930.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv12s0035g00400.t01 (Vitis vinifera), 3'ss of exon 4
gtgattggttat-ctgtcgtccgctgttccattat--ttacatccctcctgtgtactcatgtgctccattgcaatgattagGTCTATAACAAATTAGTGTTTGGAAACCACTCATTTCGACCCAACCAAAGAGAGATCATTAATGCTACAATGAGTGGTTGTGATGTTTTTGTTTTGATGC
||| | | || || | || ||| || ||| | | | | | | | | | ||| | | ||||| ||| ||||||||||||||||| || ||||| ||||| ||| |||| ||||||||||||||||| | ||||||||||||| | ||||
gtgctcatctgcattgatgtttgaaaatctatttacattgcatgtacttctgattgttacactcactggtcccgttttcagGCCAACAACAAGAAAGTTTTTGGAAACCACTCATTCCGCCCCAATCAAAGGGAGGTCATCAATGCTACAATGAGTGGATATGATGTTTTTGTTCTAATGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttccattatttacatccctcctgtgtactcatgtgctccattgcaatgattagGTCTATAACAAATTAGTGTTTGGAAACCACTCATTTCGACCCAACCAAAGAGAGATCATTAATGCTACAATGAGTGGTTGTGATGTTTTTGTTTTGATGC
attatttacat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgattggttatctgtcgtccgctgttccattatttacatccctcctgtgtactcatgtgctccattgcaatgattagGTCTATAACAAATTAGTGTTTGGAAACCACTCATTTCGACCCAACCAAAGAGAGATCATTAATGCTACAATGAGTGGTTGTGATGTTTTTGTTTTGATGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA