Sequence
atgc intronic sequence ATGC exonic sequence...atatttttagtggcatggagcctataattcgatgaagtaggtttatactccactgctaatgctaaccctgtgtgtggttcactgatctctgtaactgtagGTGCTCACACCATCGGGCAGACGGACTGCATCTTTTTCCGGTACCGGCTCTACAACTTCACGGCGACGGGGAACGCGGACCCGACGATCAGCCCGTCGGC
Basic information
species | Oryza sativa |
transcript | LOC_Os01g07770.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g07770.1 (Oryza sativa), 3'ss of exon 3
lower sequence: EFJ26388 (Selaginella moellendorffii), 3'ss of exon 3
atatttttagtggcatggagcctataattcgatgaagtaggtttatactccactgctaatgctaaccctgtgtgtggttcactgatctctgtaactgtagGTGCTCACACCATCGGGCAGACGGACTGCATCTTTTTCCGGTACCGGCTCTACAACTTCACGGCGACGGGGAACGCGGACCCGACGATCAGCCCGTCGGC
||| | | | | | | | | | || | |||| | | |||||||||||| ||||| ||||| |||||| ||||||| | ||||| |||||||||||| || | || || || |||| || | || |||| | |
--------------------------------------------gtacgtga--agtcactcgagctttctcgatcaatcgacaaa-tctgcca-tacagGTGCTCACACGATCGGCCAGACCGACTGCCGCTTTTTCAGCTACCGCCTCTACAACTTCTCGTCCACCGGCAAGCCGGATCCATCCATGAGCCAGAGCAC
upper sequence: LOC_Os01g07770.1 (Oryza sativa), 3'ss of exon 3
lower sequence: EFJ14722 (Selaginella moellendorffii), 3'ss of exon 3
atatttttagtggcatggagcctataattcgatgaagtaggtttatactccactgctaatgctaaccctgtgtgtggttcactgatctctgtaactgtagGTGCTCACACCATCGGGCAGACGGACTGCATCTTTTTCCGGTACCGGCTCTACAACTTCACGGCGACGGGGAACGCGGACCCGACGATCAGCCCGTCGGC
|| | || ||| | | | | || |||| | | | |||||||||||| ||||| ||||| |||||| ||||||| | ||||| |||||||||||| || | || || || |||| || | || |||| | |
------------------------------------------gtacgtaaaatcactcgagctttctcgat---caatcgacaaatct--gcca-tacagGTGCTCACACGATCGGCCAGACCGACTGCCGCTTTTTCAGCTACCGCCTCTACAACTTCTCGTCCACCGGCAAGCCGGATCCATCCATGAGCCAGAGCAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tactccactgctaatgctaaccctgtgtgtggttcactgatctctgtaactgtagGTGCTCACACCATCGGGCAGACGGACTGCATCTTTTTCCGGTACCGGCTCTACAACTTCACGGCGACGGGGAACGCGGACCCGACGATCAGCCCGTCGGC
tctctgt CT-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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atatttttagtggcatggagcctataattcgatgaagtaggtttatactccactgctaatgctaaccctgtgtgtggttcactgatctctgtaactgtagGTGCTCACACCATCGGGCAGACGGACTGCATCTTTTTCCGGTACCGGCTCTACAACTTCACGGCGACGGGGAACGCGGACCCGACGATCAGCCCGTCGGC
- - - - - - gcatgga
- - - - - - - - - - - - - - - - - - - - - - - - - - - -ctaatgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgtgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttcactg