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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAGTAGATGGCCGCTTATTCCCTCGTCTTCGTCTTCGTCGGCGTCGCCGTCTTCGTCCTCGCGCCACCAGCCTCCGCCGTGCCCTTCATCGTCCTGCACGgttagactcagtcaccccgtccgtcccttggcttccaacacctactattatgatggagtacttcggtttgacaagtagcagctactgatactcctcctgccgtgccgtgcgtgcag

Basic information

species Oryza sativa
transcript LOC_Os03g01150.1
intron # 1
splice site 5'
intron type U2

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|88577066|gb|CI673617.1|CI673617
EST:     CTTCGTCCTCGCGCCACCAGCCTCCGCCGTGCCCTTCATCGTCCTGCACG                         GGATCGGAGACCAGTGCGCCAACCATGGTGTCGCCAAGTTCACCCGCCTTC
genomic: CTTCGTCCTCGCGCCACCAGCCTCCGCCGTGCCCTTCATCGTCCTGCACGgttagactca ... gtgcgtgcagGGATCGGAGACCAGTGCGCCAACCATGGTGTCGCCAAGTTCACCCGCCTTC
EST: gi|88432450|gb|CI567489.1|CI567489
EST:     CTTCGTCCTCGCGCCACCAGCCTCCGCCGTGCCCTTCATCGTCCTGCACG                         GGATCGGAGACCAGTGCGCCAACCATGGTGTCGCCAAGTTCACCCGCCTTC
genomic: CTTCGTCCTCGCGCCACCAGCCTCCGCCGTGCCCTTCATCGTCCTGCACGgttagactca ... gtgcgtgcagGGATCGGAGACCAGTGCGCCAACCATGGTGTCGCCAAGTTCACCCGCCTTC
EST: gi|29619262|gb|CB624274.1|CB624274
EST:     CTTCGTCCTCGCGCCACCAGCCTCCGCCGTGCCCTTCATCGTCCTGCACG                         GGATCGGAGACCAGTGCGCCAACCATGGTGTCGCCAAGTTCACCCGCCTTC
genomic: CTTCGTCCTCGCGCCACCAGCCTCCGCCGTGCCCTTCATCGTCCTGCACGgttagactca ... gtgcgtgcagGGATCGGAGACCAGTGCGCCAACCATGGTGTCGCCAAGTTCACCCGCCTTC
EST: gi|88340848|gb|CI637008.1|CI637008
EST:     CTTCGTCCTCGCGCCACCAGCCTCCGCCGTGCCCTTCATCGTCCTGCACG                         GGATCGGAGACCAGTGCGCCAACCATGGTGTCGCCAAGTTCACCCGCCTTC
genomic: CTTCGTCCTCGCGCCACCAGCCTCCGCCGTGCCCTTCATCGTCCTGCACGgttagactca ... gtgcgtgcagGGATCGGAGACCAGTGCGCCAACCATGGTGTCGCCAAGTTCACCCGCCTTC
EST: gi|66916126|gb|CX102974.1|CX102974
EST:     CTTCGTCCTCGCGCCACCAGCCTCCGCCGTGCCCTTCATCGTCCTGCACG                         GGATCGGAGACCAGTGCGCCAACCATGGTGTCGCCAAGTTCACCCGCCTTC
genomic: CTTCGTCCTCGCGCCACCAGCCTCCGCCGTGCCCTTCATCGTCCTGCACGgttagactca ... gtgcgtgcagGGATCGGAGACCAGTGCGCCAACCATGGTGTCGCCAAGTTCACCCGCCTTC
EST: gi|29661631|gb|CB657906.1|CB657906
EST:     CTTCGTCCTCGCGCCACCAGCCTCCGCCGTGCCCTTCATCGTCCTGCACG                         GGATCGGAGACCAGTGCGCCAACCATGGTGTCGCCAAGTTCACCCGCCTTC
genomic: CTTCGTCCTCGCGCCACCAGCCTCCGCCGTGCCCTTCATCGTCCTGCACGgttagactca ... gtgcgtgcagGGATCGGAGACCAGTGCGCCAACCATGGTGTCGCCAAGTTCACCCGCCTTC
EST: gi|11025710|gb|AU162311.1|AU162311
EST:     CTTCGTCCTCGCGCCACCAGCCTCCGCCGTGCCCTTCATCGTCCTGCACG                         GGATCGGAGACCAGTGCGCCAACCATGGTGTCGCCAAGTTCACCCGCCTTC
genomic: CTTCGTCCTCGCGCCACCAGCCTCCGCCGTGCCCTTCATCGTCCTGCACGgttagactca ... gtgcgtgcagGGATCGGAGACCAGTGCGCCAACCATGGTGTCGCCAAGTTCACCCGCCTTC
EST: gi|88324289|gb|CI566102.1|CI566102
EST:     CTTCGTCCTCGCGCCACCAGCCTCCGCCGTGCCCTTCATCGTCCTGCACG                         GGATCGGAGACCAGTGCGCCAACCATGGTGTCGCCAAGTTCACCCGCCTTC
genomic: CTTCGTCCTCGCGCCACCAGCCTCCGCCGTGCCCTTCATCGTCCTGCACGgttagactca ... gtgcgtgcagGGATCGGAGACCAGTGCGCCAACCATGGTGTCGCCAAGTTCACCCGCCTTC
EST: gi|88735407|gb|CI758915.1|CI758915
EST:     CTTCGTCCTCGCGCCACCAGCCTCCGCCGTGCCCTTCATCGTCCTGCACG                         GGATCGGAGACCAGTGCGCCAACCATGGTGTCGCCAAGTTCACCCGCCTTC
genomic: CTTCGTCCTCGCGCCACCAGCCTCCGCCGTGCCCTTCATCGTCCTGCACGgttagactca ... gtgcgtgcagGGATCGGAGACCAGTGCGCCAACCATGGTGTCGCCAAGTTCACCCGCCTTC
EST: gi|88447741|gb|CI579817.1|CI579817
EST:     CTTCGTCCTCGCGCCACCAGCCTCCGCCGTGCCCTTCATCGTCCTGCACG                         GGATCGGAGACCAGTGCGCCAACCATGGTGTCGCCAAGTTCACCCGCCTTC
genomic: CTTCGTCCTCGCGCCACCAGCCTCCGCCGTGCCCTTCATCGTCCTGCACGgttagactca ... gtgcgtgcagGGATCGGAGACCAGTGCGCCAACCATGGTGTCGCCAAGTTCACCCGCCTTC
EST: gi|58678057|gb|CK066744.1|CK066744
EST:     CTTCGTCCTCGCGCCACCAGCCTCCGCCGTGCCCTTCATCGTCCTGCACG                         GGATCGGAGACCAGTGCGCCAACCATGGTGTCGCCAAGTTCACCCGCCTTC
genomic: CTTCGTCCTCGCGCCACCAGCCTCCGCCGTGCCCTTCATCGTCCTGCACGgttagactca ... gtgcgtgcagGGATCGGAGACCAGTGCGCCAACCATGGTGTCGCCAAGTTCACCCGCCTTC
EST: gi|88389314|gb|CI598112.1|CI598112
EST:     CTTCGTCCTCGCGCCACCAGCCTCCGCCGTGCCCTTCATCGTCCTGCACG                         GGATCGGAGACCAGTGCGCCAACCATGGTGTCGCCAAGTTCACCCGCCTTC
genomic: CTTCGTCCTCGCGCCACCAGCCTCCGCCGTGCCCTTCATCGTCCTGCACGgttagactca ... gtgcgtgcagGGATCGGAGACCAGTGCGCCAACCATGGTGTCGCCAAGTTCACCCGCCTTC
EST: gi|33670484|gb|CF298723.1|CF298723
EST:     CTTCGTCCTCGCGCCACCAGCCCCCGCCGTGCCCTTCATCGTCCTGCACG                         GGATCGGAGACCAGTGCGCCAACCATGGTGTCGCCAAGTTCACCCGCCTTC
genomic: CTTCGTCCTCGCGCCACCAGCCTCCGCCGTGCCCTTCATCGTCCTGCACGgttagactca ... gtgcgtgcagGGATCGGAGACCAGTGCGCCAACCATGGTGTCGCCAAGTTCACCCGCCTTC
EST: gi|117235882|gb|CT847837.1|CT847837
EST:     CTTCGTCCTCGCGCCACCAGCCTCCGCCGTGCCCTTCATCGTCCTGCACG                         GGATCGGAGACCAGTGCGCCAACCATGGTGTCGCCAAGTTCACCCGCCTTC
genomic: CTTCGTCCTCGCGCCACCAGCCTCCGCCGTGCCCTTCATCGTCCTGCACGgttagactca ... gtgcgtgcagGGATCGGAGACCAGTGCGCCAACCATGGTGTCGCCAAGTTCACCCGCCTTC
EST: gi|88743128|gb|CI766636.1|CI766636
EST:     CTTCGTCCTCGCGCCACCAGCCTCCGCCGTGCCCTTCATCGTCCTGCACG                         GGATCGGAGACCAGTGCGCCAACCATGGTGTCGCCAAGTTCACCCGCCTTC
genomic: CTTCGTCCTCGCGCCACCAGCCTCCGCCGTGCCCTTCATCGTCCTGCACGgttagactca ... gtgcgtgcagGGATCGGAGACCAGTGCGCCAACCATGGTGTCGCCAAGTTCACCCGCCTTC

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 37 (upstream exon), 72 (downstream exon)
Score: 8

TAGTAGATGGCCGCTTATTCCCTCGTCTTCGTCTTCGTCGGCGTCGCCGTCTTCGTCCTCGCGCCACCAGCCTCCGCCGTGCCCTTCATCGTCCTGCACGgttagactca ... gtgcgtgcagGGATCGGAGACCAGTGCGCCAACCATGGTGTCGCCAAGTTCACCCGCCTTCTCGCCGACTGGTCCGCCTCCCATGGCTACTGCCT




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