Sequence
atgc intronic sequence ATGC exonic sequenceAGCAGAAAGGACTGTAGAAATTGCATTAGCAAAAGCGGCCATGGTTGATGACATGCAAAACAAGAACCAAGAGTTAATGAAACAAATTGAGATCTGCCAGgtacatgtctagtatttcacagtgttgtaagaaataaccgttagatcactctgataaaactgaatggggccaatttgcttggtaccatctcaaaaatctc...
Basic information
species | Oryza sativa |
transcript | LOC_Os02g50320.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os02g50320.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM5G832989_T01 (Zea mays), 5'ss of exon 5
AGCAGAAAGGACTGTAGAAATTGCATTAGCAAAAGCGGCCATGGTTGATGACATGCAAAACAAGAACCAAGAGTTAATGAAACAAATTGAGATCTGCCAGgtacatg-----tctagtatttcacagtgttgtaagaaataaccgttagatcactctgataa--aactgaatggggccaatttgcttggtaccatctcaaaaatctc
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AGCGGAAAGGACTGTACAAATCGCAATGGCTAAAGCTGCTATGGTTGATGACATGCAAAATAAGAACCAAGAGTTGATGAAGCAAATTGAAATTTGCCAGgtaaatagattcttttgtaccttacaagtctatacaataaattaaataattaaccagtaaagtcatctcgattgaacttatttgttggttaccttcctggaatgcag
upper sequence: LOC_Os02g50320.2 (Oryza sativa), 5'ss of exon 5
lower sequence: AT1G24764.1 (Arabidopsis thaliana), 5'ss of exon 5
AGCAGAAAGGACTGTAGAAATTGCATTAGCAAAAGCGGCCATGGTTGATGACATGCAAAACAAGAACCAAGAGTTAATGAAACAAATTGAGATCTGCCAGgtac-atgtctagtatttcacagtgttgtaagaaat-aaccgttagatcactctgataaaactgaatggggccaatttgcttggtaccatctcaaaaatctc
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AGCTGAGAGGACCGTTGAAGCTGCCATGGCAAAAGCCGCTATGGTTGATGATCTTCAGAATAAGAACCAGGAGCTAATGAAGCAAATTGAAATCTGTCAGgttctgtggtcgccatcttgttct-ttgtatttacttaatctatggat--ttgccaacaatctgattaactttattttctgttttag---------------
upper sequence: LOC_Os02g50320.2 (Oryza sativa), 5'ss of exon 5
lower sequence: AT1G68060.1 (Arabidopsis thaliana), 5'ss of exon 5
AGCAGAAAGGACTGTAGAAATTGCATTAGCAAAAGCGGCCATGGTTGATGACATGCAAAACAAGAACCAAGAGTTAATGAAACAAATTGAGATCTGCCAGgtac-atgtctagtat----ttcacagtgttgtaagaaataaccgttagatcactctga--taaaactgaatggggccaatttgcttggtaccatctcaaaaatctc----
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TGCTGAGAGGACTGTTGAAACTGCTCTGGCGAAAGCTGCTTTAGTTGATGATCTTCAGAATAAGAACCAAGAGTTGATGAAACAAATAGAAATCTGTCAGgtgctgtactcattatcatcttctttgtatctagttagtcaggctttggatgccttctacttatcactcattgtttgttaataatttc-tattatctgtttgattctttagMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|25777864|gb|CA752614.1|CA752614EST: ACATGCAAAACAAGAACCAAGAGTTAATGAAGCAAATTGAGATCTGCCAG GAAGAAAACAAGATCTTGGACAGGCTGCACCGCCAAAAAGTTGCTGAAGTA
genomic: ACATGCAAAACAAGAACCAAGAGTTAATGAAACAAATTGAGATCTGCCAGgtacatgtct ... tggattaaagGAAGAAAATAAGATCTTGGACAGGCTGCACCGCCAAAAAGTTGCTGAAGTA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGCAGAAAGGACTGTAGAAATTGCATTAGCAAAAGCGGCCATGGTTGATGACATGCAAAACAAGAACCAAGAGTTAATGAAACAAATTGAGATCTGCCAGgtacatgtctagtatttcacagtgttgtaagaaataaccgttagatcactctgataaaactgaatggggccaatttgcttggtaccatctcaaaaatctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC