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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTTCCATGCTGCATTGGATCAACAACAGAGAATCGCCAACATCAAAGAGTTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAGgtaaggcatcgatcacctgaagtgaagcgcatgaaatcgattctgttttcaagcgatgatctgattggatttggtgggtggcatgcag

Basic information

species Oryza sativa
transcript LOC_Os03g01830.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g01830.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G113267_T03 (Zea mays), 5'ss of exon 1
CCTTCCATGCTGCATTGGATCAACAACAGAGAATCGCCAACATCAAAGAGTTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAGgtaag--gcatcgat-------cacctgaagtgaagcgcatgaaatcgattctgttttca---------agcgatgat----ctgattggatttggtgggtggca-tgcag
|||||||||||||  |||||||    ||| | ||||| |||||||| ||||||||||||||||| ||||||||||| |||||||| |||||||||||||||| ||  |||| |         || |       |  |  || |  |  ||| ||||||           |||| ||||    |   |||  ||||  |   | |  |||||
CCTTCCATGCTGCGCTGGATCAGGCCCAGCGCATCGCAAACATCAAGGAGTTCCTGAACAAGCAAACGGCTGACTCCATGTTCCTTGTGTGCACAGATAGgtcagcagcattggctagaccgcatccccgccaatccatataagctttattttgtttttttttttcttcagcgctgatgctaccatttgagtttgacgacggtcggtgcag
















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|88515874|gb|CI443528.1|CI443528
EST:     TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAG                         GGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
genomic: TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAGgtaaggcatc ... tggcatgcagGGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
EST: gi|86522815|gb|CI163021.1|CI163021
EST:     TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAG                         GGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
genomic: TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAGgtaaggcatc ... tggcatgcagGGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
EST: gi|29646792|gb|CB651799.1|CB651799
EST:     TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAG                         GGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
genomic: TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAGgtaaggcatc ... tggcatgcagGGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
EST: gi|88992849|gb|CI035811.1|CI035811
EST:     GGTGTGCACAGATAG                         GGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
genomic: GGTGTGCACAGATAGgtaaggcatc ... tggcatgcagGGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
EST: gi|218497130|gb|FG964591.1|FG964591
EST:     TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAG                         GGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
genomic: TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAGgtaaggcatc ... tggcatgcagGGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
EST: gi|89175611|gb|CI042632.1|CI042632
EST:     TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAG                         GGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
genomic: TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAGgtaaggcatc ... tggcatgcagGGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
EST: gi|86846564|gb|CI280870.1|CI280870
EST:     CTGACTCGATGTTCCTGGTGTGCACAGATAG                         GGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
genomic: CTGACTCGATGTTCCTGGTGTGCACAGATAGgtaaggcatc ... tggcatgcagGGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
EST: gi|29625765|gb|CB630776.1|CB630776
EST:     TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAG                         GGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
genomic: TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAGgtaaggcatc ... tggcatgcagGGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
EST: gi|29641693|gb|CB646700.1|CB646700
EST:     TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAG                         GGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
genomic: TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAGgtaaggcatc ... tggcatgcagGGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
EST: gi|33799074|gb|CF325397.1|CF325397
EST:     TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAG                         GGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
genomic: TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAGgtaaggcatc ... tggcatgcagGGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
EST: gi|313081075|gb|HO213661.1|HO213661
EST:     TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAG                         GGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
genomic: TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAGgtaaggcatc ... tggcatgcagGGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
EST: gi|86493417|gb|CI136050.1|CI136050
EST:     TTCCTGCACAAGCAGACGGCTGACTCGATGTTCCTGCTGTGCACAGATAG                         GGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
genomic: TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAGgtaaggcatc ... tggcatgcagGGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
EST: gi|313079579|gb|HO213137.1|HO213137
EST:     TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAG                         GGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
genomic: TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAGgtaaggcatc ... tggcatgcagGGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
EST: gi|88989457|gb|CI043906.1|CI043906
EST:     TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAG                         GGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
genomic: TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAGgtaaggcatc ... tggcatgcagGGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
EST: gi|88515223|gb|CI442877.1|CI442877
EST:     TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAG                         GGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
genomic: TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAGgtaaggcatc ... tggcatgcagGGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
EST: gi|86419001|gb|CI053802.1|CI053802
EST:     TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAG                         GGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
genomic: TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAGgtaaggcatc ... tggcatgcagGGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
EST: gi|29628634|gb|CB633645.1|CB633645
EST:     TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAG                         GGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
genomic: TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAGgtaaggcatc ... tggcatgcagGGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
EST: gi|89186520|gb|CI048192.1|CI048192
EST:     CAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAG                         GGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
genomic: CAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAGgtaaggcatc ... tggcatgcagGGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
EST: gi|86255018|gb|CI017138.1|CI017138
EST:     GCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAG                         GGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
genomic: GCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAGgtaaggcatc ... tggcatgcagGGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
EST: gi|88250147|gb|CI249996.1|CI249996
EST:     GATGTTCCTGGTGTGCACAGATAG                         GGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
genomic: GATGTTCCTGGTGTGCACAGATAGgtaaggcatc ... tggcatgcagGGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
EST: gi|86887270|gb|CI313173.1|CI313173
EST:     GCTGACTCGATGTTCCTGG-GTGCACAGATAG                         GGCTTCGCAATGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
genomic: GCTGACTCGATGTTCCTGGTGTGCACAGATAGgtaaggcatc ... tggcatgcagGGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
EST: gi|86493120|gb|CI135753.1|CI135753
EST:     TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAG                         GGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
genomic: TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAGgtaaggcatc ... tggcatgcagGGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
EST: gi|22306753|gb|BQ907975.1|BQ907975
EST:     TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAG                         GGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
genomic: TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAGgtaaggcatc ... tggcatgcagGGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
EST: gi|88212353|gb|CI211993.1|CI211993
EST:     TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAG                         GGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
genomic: TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAGgtaaggcatc ... tggcatgcagGGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
EST: gi|14571286|gb|BI118654.1|BI118654
EST:     TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAG                         GGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
genomic: TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAGgtaaggcatc ... tggcatgcagGGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
EST: gi|218499948|gb|FG964313.1|FG964313
EST:     TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAG                         GGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
genomic: TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAGgtaaggcatc ... tggcatgcagGGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
EST: gi|88211803|gb|CI211443.1|CI211443
EST:     TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAG                         GGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
genomic: TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAGgtaaggcatc ... tggcatgcagGGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
EST: gi|86252230|gb|CI055967.1|CI055967
EST:     TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAG                         GGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
genomic: TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAGgtaaggcatc ... tggcatgcagGGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
EST: gi|86429174|gb|CI075855.1|CI075855
EST:     TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAG                         GGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
genomic: TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAGgtaaggcatc ... tggcatgcagGGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
EST: gi|109713068|gb|CI105676.1|CI105676
EST:     TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAG                         GGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
genomic: TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAGgtaaggcatc ... tggcatgcagGGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
EST: gi|87031044|gb|CI362258.1|CI362258
EST:     TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAG                         GGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
genomic: TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAGgtaaggcatc ... tggcatgcagGGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
EST: gi|218481605|gb|FG958669.1|FG958669
EST:     TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAG                         GGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA
genomic: TTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAGgtaaggcatc ... tggcatgcagGGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGA

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: 74 (upstream exon), 57 (downstream exon)
Score: 16

CCTTCCATGCTGCATTGGATCAACAACAGAGAATCGCCAACATCAAAGAGTTCCTGAACAAGCAGACGGCTGACTCGATGTTCCTGGTGTGCACAGATAGgtaaggcatc ... tggcatgcagGGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGACTACCCGCGCGACCCGAGTGAGTACGTGCGGCGCGTCGGCAGGACGGCC




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