Sequence
atgc intronic sequence ATGC exonic sequenceGAGCTCCAATATTTTTGCTGACCACACAAGTTGGTGGGCTTGGACTTACACTCACCAAGGCAGCTCGTGTCATAGTAGTTGATCCTGCTTGGAATCCAAGgtacctgaacaacgccgtttccttactgagtttattgcctttttattttactgaatgtttgtctctgtatgtttactaatgctcctgtttcccatcttcag
Basic information
species | Oryza sativa |
transcript | LOC_Os04g59624.3 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os04g59624.3 (Oryza sativa), 5'ss of exon 12
lower sequence: GRMZM2G138125_T02 (Zea mays), 5'ss of exon 13
GAGCTCCAATATTTTTGCTGACCACACAAGTTGGTGGGCTTGGACTTACACTCACCAAGGCAGCTCGTGTCATAGTAGTTGATCCTGCTTGGAATCCAAGgtacctgaacaacgccgtttccttac-tgagtttattgcctttttattttactgaatgtttgtctctgtatgtttactaatgctcctgtttccc-atcttcag
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GAGCTCCAGTTTTTCTGCTAACCACACAAGTTGGTGGGCTTGGACTTACACTCACCAAGGCAACTCGTGTCATTGTAGTTGATCCTGCATGGAACCCTAGgtatctgagctatgatacgtatctgtatgtctgtatcga-ttgaagttttcttgaatgaagttttcaat-------cttacacccttgtttttctatttacag
upper sequence: LOC_Os04g59624.3 (Oryza sativa), 5'ss of exon 12
lower sequence: GLYMA08G00400.1 (Glycine max), 5'ss of exon 15
GAGCTCCAATATTTTTGCTGACCACACAAGTTGGTGGGCTTGGACTTACACTCACCAAGGCAGCTCGTGTCATAGTAGTTGATCCTGCTTGGAATCCAAGgtacctgaacaacgccgtttccttactgagtttattgcctttttattttactgaatgtttgtctctgtatgtttactaatgctcctgtttcccatcttcag
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GAGCTCCTATATTTCTCTTGACATCTCAGGTTGGCGGTTTAGGACTAACACTTACAAGAGCAGATCGTGTGATTGTAGTTGATCCTGCTTGGAACCCAAGgtacatct-taaagtattcctttcccttgactatatgtctatatacatcgttaactgcctgttgctaaaactttttttttttaccatttttccagttttac
upper sequence: LOC_Os04g59624.3 (Oryza sativa), 5'ss of exon 12
lower sequence: GLYMA05G32740.1 (Glycine max), 5'ss of exon 13
GAGCTCCAATATTTTTGCTGACCACACAAGTTGGTGGGCTTGGACTTACACTCACCAAGGCAGCTCGTGTCATAGTAGTTGATCCTGCTTGGAATCCAAGgtac---ctgaacaacgccgtttcctt-actgagtttattgcc--tttttattttactgaatgtttgtctctgtatgtttactaatgctcctgtttcccatcttcag
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GAGCTCCTATATTTCTCTTGACATCTCAGGTTGGTGGTTTAGGACTAACACTTACAAGAGCAGATCGTGTGATTGTAGTTGATCCTTCTTGGAACCCAAGgtacatcttgaagtattcgtttcccttgactatatacatcgttaactgtcaaggtgctgaat---tgttgctaaaacatttcttttttaccatttttctagtt----Mapped 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|58685729|gb|CK074416.1|CK074416EST: CTCACCAAGGCAGCTCGTGTCATAGTAGTTGATCCTGCTTGGAATCCAAG TACGGACAATCAAAGTGTTGATCGTGCTTATCGAATTGGGCAGATGAAAGA
genomic: CTCACCAAGGCAGCTCGTGTCATAGTAGTTGATCCTGCTTGGAATCCAAGgtacctgaac ... ccatcttcagTACGGACAATCAAAGTGTTGATCGTGCTTATCGAATTGGGCAGATGAAAGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAGCTCCAATATTTTTGCTGACCACACAAGTTGGTGGGCTTGGACTTACACTCACCAAGGCAGCTCGTGTCATAGTAGTTGATCCTGCTTGGAATCCAAGgtacctgaacaacgccgtttccttactgagtttattgcctttttattttactgaatgtttgtctctgtatgtttactaatgctcctgtttcccatcttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC