Sequence
atgc intronic sequence ATGC exonic sequence...ttgtactatatgttacagattttttttttctaaaacaatacaacatgcataagatgggtgaaaatacacaaaaaaaaaaaacaaatctccatgcatgcagGCGATGGCAAGATTCATGGAGAAGATAATGGGTGGCAAGGCGACGTTCGACCCCGACCGCATCGTCCTCACTGCCGGAGCGACGGCGGCCAACGAGCTCC
Basic information
species | Oryza sativa |
transcript | LOC_Os05g25490.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os05g25490.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G163015_T01 (Zea mays), 3'ss of exon 1
-----ttgtactatatgttacagattttttttttctaaaacaatacaacatgcataagatgggtgaaaatacacaaaaaaaaaaaacaaatctccatgcatgcagGCGATGGCAAGATTCATGGAGAAGATAATGGGTGGCAAGGCGACGTTCGACCCCGACCGCATCGTCCTCACTGCCGGAGCGACGGCGGCCAACGAGCTCC
| || | | | | ||| | | | | || || | | ||| | | || ||| ||||||||||||| | |||||||||||| | | ||| |||||||| ||| ||||||||||||||||| ||||| ||||| || ||||| || |||||||| |
gtgcgtggtgaccccgagcgcctgctctgctcgtcttgttcggtgtcctggatagaccctgcctggacaagtgcaacgtactgacg-gcgtcattttgcttgcagGCGATGGCCAACTTCATGGAGAAGGTTAGGGGCGGCAAGGCCCGGTTTGACCCCGACCGCATCGTGCTCACCGCCGGCGCCACGGCAGCTAACGAGCTGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcataagatgggtgaaaatacacaaaaaaaaaaaacaaatctccatgcatgcagGCGATGGCAAGATTCATGGAGAAGATAATGGGTGGCAAGGCGACGTTCGACCCCGACCGCATCGTCCTCACTGCCGGAGCGACGGCGGCCAACGAGCTCC
tctccat CT-rich tract
tgaaaatacacaaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgtactatatgttacagattttttttttctaaaacaatacaacatgcataagatgggtgaaaatacacaaaaaaaaaaaacaaatctccatgcatgcagGCGATGGCAAGATTCATGGAGAAGATAATGGGTGGCAAGGCGACGTTCGACCCCGACCGCATCGTCCTCACTGCCGGAGCGACGGCGGCCAACGAGCTCC
- - - - - - - - - - - - - - - -aaaacaa
- - - - - - - - - - - - - - - - - - - - - acatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaatac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaacaaa