Sequence
atgc intronic sequence ATGC exonic sequencegtgctttttccattgttttaaattgaatatatacgtttgtctgttccatattttcatttctgtgagtctgatctgtttttgaccttgatttactctcagAAACAAGACTATAAGATGGCTCTTAGAAAGTACCGTAAGGCTTTACGCTATCTGGATATTTGCTGGGAGAAAGAGGGCATTGATGAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G15790.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G15790.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv03s0063g01030.t01 (Vitis vinifera), 3'ss of exon 2
gtgctttttccattgttttaaattgaatatat---acgtttgtctgttccatattttcatttctgtgagtctgatctgtttttgaccttgatttactctcagAAACAAGACTATAAGATGGCTCTTAGAAAGTACCGTAAGGCTTTACGCTATCTGGATATTTGCTGGGAGAAAGAGGGCATTGATGAAG
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-tatcttttcttctttcttgtcttttcttttttgggtacttgattgtttctccttgtttagtgtactgcattgatgaaatttttgtcatcaat-gtttgcagAAGCAAGACTATAAAATGGCACTCAGGAAATATCGGAAGGCTTTACGCTATTTGGATATATGCTGGGAGAAAGAAGGGATTGATGAAG
upper sequence: AT2G15790.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: PP1S46_106V6.2 (Physcomitrella patens), 3'ss of exon 4
gtgctttttccattgttttaaattgaatatatacgtttgtctgttccatattttcatttctgtgagtct----gatctgtttttgaccttgatt-tactctc-----agAAACAAGACTATAAGATGGCTCTTAGAAAGTACCGTAAGGCTTTACGCTATCTGGATATTTGCTGGGAGAAAGAGGGCATTGATGAAG
||| | || || | | || | || ||| || | | | ||| | || ||| | | |||| || | ||||| || || | || ||||| ||| || |||| ||||| |||||||| |||||||| ||||| ||||| ||| | || ||||||||||||| ||||||||
gtgataagcagtttcattaaccctcaaaaatta---ttggctaatgcctctttgaagtttcgtggggtttatagatccattggtaaccttccttgtattttcgaagcagAAAGGAGATTACAAGACTGCTCTAAGAAAGTATCGTAAGGCGTTACGATATCTAGATGTATGTTGGGAGAAAGAGGAGCTTGATGAAA
upper sequence: AT2G15790.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: PP1S181_43V6.1 (Physcomitrella patens), 3'ss of exon 3
------------------------------gtgcttttt--ccattgttttaaattgaat----atat-acgtttgtctgttccatattttcatttctgtgagtct----gatctgtttttgaccttga--tttactctcagAAACAAGACTATAAGATGGCTCTTAGAAAGTACCGTAAGGCTTTACGCTATCTGGATATTTGCTGGGAGAAAGAGGGCATTGATGAAG
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gtgattatccaagcagattgattgcttcaaataatatatagccagtatcctctactccattctcatatcacatttcttgtttctggagactgttttatgtggacgttgtagaacccttggtaattatcgcgtgtgtttgcagAAAGGAGACTATAAGACTGCACTAAGAAAGTATCGTAAGGCTCTACGGTATCTAGATGTATGTTGGGAGAAAGAGGAGCTCGATGAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccatattttcatttctgtgagtctgatctgtttttgaccttgatttactctcagAAACAAGACTATAAGATGGCTCTTAGAAAGTACCGTAAGGCTTTACGCTATCTGGATATTTGCTGGGAGAAAGAGGGCATTGATGAAG
tttactctc CT-rich tract
attttcattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgctttttccattgttttaaattgaatatatacgtttgtctgttccatattttcatttctgtgagtctgatctgtttttgaccttgatttactctcagAAACAAGACTATAAGATGGCTCTTAGAAAGTACCGTAAGGCTTTACGCTATCTGGATATTTGCTGGGAGAAAGAGGGCATTGATGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG