Sequence
atgc intronic sequence ATGC exonic sequenceGTAGGTATCTTTGATGCCACAAACAGCACAAGAAACCGGAGAAATATGCTGATGAAAATGGCGGAAGGCAAGTGTAAGgtataactgaataagtgtgcagttcattgcctttttcttggttgtttgaatcatttgtttctcaccattgacattgttggaaattgtccatgcagtaata...
Basic information
species | Oryza sativa |
transcript | LOC_Os03g18310.2 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g18310.3 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM5G824405_T02 (Zea mays), 5'ss of exon 9
GTAGGTATCTTTGATGCCACAAACAGCACAAGAAACCGGAGAAATATGCTGATGAAAATGGCGGAAGGCAAGTGTAAGgtataactgaataagtgtgcagttcattgcctttttcttggttgtttgaatcatttgtttctcaccattgacattgttggaaattgtccatgcagtaata---
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GTTGGTATTTTCGATGCCACAAACAGCACAAGAATACGGAGGAACATGCTGATGAAAATGGCTGAAGGAAAATGTAAGgtatgtttaaatcattgtgtgcatcttggacatccttttgg---tttgaattttttttgtctcctgccaattggcaatagtatttttatatctctaactaagc
upper sequence: LOC_Os03g18310.3 (Oryza sativa), 5'ss of exon 10
lower sequence: AT1G07110.1 (Arabidopsis thaliana), 5'ss of exon 11
GTAGGTATCTTTGATGCCACAAACAGCACAAGAAACCGGAGAAATATGCTGATGAAAATGGCGGAAGGCAAGTGTAAGgtataactgaataagtgtgcagtt-cattgcctttttcttggttgtttgaatcatttgtttctcaccattgacattgttggaaattgtccatgcagtaata
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GTTGGAATCTTTGATGCAACTAATAGCACACGAGTTCGACGGAATATGTTGATGAAAATGGCTGAAGGAAAGTGTAAGgtattgaagctttgatatactgtgatgttgtttctcatttaatggcacggttattcttctgcggaaagcatgcttggttagcagtt-tctattttcaaaga
upper sequence: LOC_Os03g18310.3 (Oryza sativa), 5'ss of exon 10
lower sequence: Vv06s0004g06920.t01 (Vitis vinifera), 5'ss of exon 11
GTAGGTATCTTTGATGCCACAAACAGCACAAGAAACCGGAGAAATATGCTGATGAAAATGGCGGAAGGCAAGTGTAAGgtataac--tgaataagtgtgcagttcattgcctttttcttggttgtttgaatcatttgtttctcaccattgacattgttggaaattgtccatgcagtaata--
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GTTGGAATATTCGATGCCACAAACAGTACCAGGAAACGAAGGAATATGCTGATGAAAATGGCTGAGGGAAATTGCAAGgtaacatgatcaatgcacatgaagacagctaagaatttcctga--gtatgaa--aattaatatggatgtttggtgaagcatatgtgttccagggcagaaacaaaMapped 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|58689570|gb|CK078257.1|CK078257EST: CAAGAAACCGGAGAAATATGCTGATGAAAATGGCGGAAGGCAAGTGTAAG ATCATCTTTTTGGAAACAATATGTAATGACCAAAATGTTCTCGAGAGAAAT
genomic: CAAGAAACCGGAGAAATATGCTGATGAAAATGGCGGAAGGCAAGTGTAAGgtataactga ... tactttacagATCATCTTTTTGGAAACAATATGTAATGACCAAAATGTTCTCGAGAGAAAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTAGGTATCTTTGATGCCACAAACAGCACAAGAAACCGGAGAAATATGCTGATGAAAATGGCGGAAGGCAAGTGTAAGgtataactgaataagtgtgcagttcattgcctttttcttggttgtttgaatcatttgtttctcaccattgacattgttggaaattgtccatgcagtaata
- - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - GCTGAT