Sequence
atgc intronic sequence ATGC exonic sequence...ttgtttgttattttgtgaggtttatattgatctcctgctatggtgtctatgttgctttgctgaaatctacttagtttttatgaattctgtatactttcagAGACATTTCCGTCGACTAATCGCTTCACATACTGACGTTAGCCTAGGAGATTGTTCCTTTCTCGATACTTGTCGTCACATGAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT4G10760.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G10760.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os02g45110.1 (Oryza sativa), 3'ss of exon 2
ttgtttgttattttgtgaggtttatattgatctcctgctatggtgtctatgttgctt-tgctgaaatctactt----agtttttatgaattctgtatacttt-cagAGACATTTCCGTCGACTAATCGCTTCACATACTGACGTTAGCCTAGGAGATTGTTCCTTTCTCGATACTTGTCGTCACATGAAG
| || ||| | || || | | | | | |||| | | | || | || | | | ||| | ||| | | || | || || ||| |||||||| || | || ||| | |||||||| | ||||||||||||||| |||||||| ||||| ||||||| |||
-----tttttccttg-aatacttgaatagcttttgttatctggtcttttagctgttcatggtaacaactaatctggaagtaactgtttatatttcattctgagcagGTCCATTTCCGCCGTATTATTGCTCCTCATACTGATACAAACCTAGGAGATTGTTCTTTTCTCGACACTTGCCGTCACACAAAG
upper sequence: AT4G10760.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA16G03690.1 (Glycine max), 3'ss of exon 3
-------------------------------------------------------------------------------------ttgtttgt-tattttgtgaggtttatattgatctcctgctatggtgtctatgttgctttgctgaaatctacttagtttttatgaat--tctgtatactttcagAGACATTTCCGTCGACTAATCGCTTCACATACTGACGTTAGCCTAGGAGATTGTTCCTTTCTCGATACTTGTCGTCACATGAAG
|| || | | ||| | | | || | || |||| | || || || | | | ||| | || ||| || | || ||| ||||| | | | || ||| | ||||||||| | | ||||||||||||| ||||| |||||||| || |||||||||
gttagtgacaaggacagtattatactgtttttttatttcttggatttcataactctttcaatctctgtttgtttaaactattatgctgattatgtggtttttttaatggaatttaaccttgaatattggtatttacatt--ttctattagtctttcttgacatgcattaatgatcctttcctttgcagGTTCATTTTAGAAGGATCATTGCTCCTCATACTGACATCAATTTAGGAGATTGTTCTTTTCTTGATACTTGCCGACACATGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctatgttgctttgctgaaatctacttagtttttatgaattctgtatactttcagAGACATTTCCGTCGACTAATCGCTTCACATACTGACGTTAGCCTAGGAGATTGTTCCTTTCTCGATACTTGTCGTCACATGAAG
tactttc CT-rich tract
ttagtttttatgaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgtttgttattttgtgaggtttatattgatctcctgctatggtgtctatgttgctttgctgaaatctacttagtttttatgaattctgtatactttcagAGACATTTCCGTCGACTAATCGCTTCACATACTGACGTTAGCCTAGGAGATTGTTCCTTTCTCGATACTTGTCGTCACATGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
-tgtttgt
- - - - - - - - - ggtttat
- - - - - - - - - - - - - - - - - ctgctat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgaaat