Sequence
atgc intronic sequence ATGC exonic sequence...ctcacaaactttcagtaatcagtaagatgctaagatctgaactgaatttcagtgaaaaattaacccctatcctgatcttctcgcgtccatgaaattgcagACTGAAATCTCACTATGCCGCGTGTACAAGCGCACCGGCATCGACGACGGCCATGGCCAGGTATCCACGGCGCGGTCGTCGGCGCACTCCCGCGGCGGCG
Basic information
species | Oryza sativa |
transcript | LOC_Os01g66490.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g66490.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM5G813651_T01 (Zea mays), 3'ss of exon 2
-----ctcacaaactttcagtaatcagtaagatgctaagatctgaactgaatttcagtgaaaaattaacccctatcctgatcttctcgcgtccatgaaattgcagACTGAAATCTCACTATGCCGCGTGTACAAGCGCACCGGCATCGACGACGGCCATGGCCAGGTATCCACGGCGCGGTCGTCGGCGCACTCCCGCGGCGGCG
||| || || | | | | ||| || | | | | ||| ||| || | || || | || | | | ||||| ||||| || || |||||||||||||||||||||||||||||||||||| | | || | || | ||| ||| ||||||||||| ||
acccattcatgctctcgcacttgttctttcgtcgctcagcttt--att--attagcatgatgcat-gccatctggataattcatgccgaattcgcattgcttcagACCGAAATATCCCTCTGCCGCGTGTACAAGCGCACCGGCATCGACGACGGCGGCCACGGGCATCCCGCCTCGGCGCGCTCGACGCCCTCCCGCGGCGTCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttcagtgaaaaattaacccctatcctgatcttctcgcgtccatgaaattgcagACTGAAATCTCACTATGCCGCGTGTACAAGCGCACCGGCATCGACGACGGCCATGGCCAGGTATCCACGGCGCGGTCGTCGGCGCACTCCCGCGGCGGCG
tgaaaaattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctcacaaactttcagtaatcagtaagatgctaagatctgaactgaatttcagtgaaaaattaacccctatcctgatcttctcgcgtccatgaaattgcagACTGAAATCTCACTATGCCGCGTGTACAAGCGCACCGGCATCGACGACGGCCATGGCCAGGTATCCACGGCGCGGTCGTCGGCGCACTCCCGCGGCGGCG
- -acaaact
- - - - - - - - - - - - agatgct
- - - - - - - - - - - - - - - - - - -tgaactg
- - - - - - - - - - - - - - - - - - - - - - - - - -gtgaaaaa