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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAATAAAAGCACGGAATTCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAACgtatgatacattctcaaactagactactagagctatataattacactgatcaaagaatttcctgcccattcctataaactgacatctttcgtcttcacgatgtacag

Basic information

species Oryza sativa
transcript LOC_Os12g07060.1
intron # 17
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|218480866|gb|FG958004.1|FG958004
EST:     TCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAAC                         GGATGTGACACAACGACAACGCGAGTTAATGGAGGAATTTGATAAAGAGGA
genomic: TCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAACgtatgataca ... cgatgtacagGGATGTGACACAACGACAACGCGAGTTAATGGAGGAATTTGATAAAGAGGA
EST: gi|218491432|gb|FG970302.1|FG970302
EST:     TCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAAC                         GGATGTGACACAACGACAACGCGAGT-AATGGAGGA-TTTGATAAAGAGGA
genomic: TCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAACgtatgataca ... cgatgtacagGGATGTGACACAACGACAACGCGAGTTAATGGAGGAATTTGATAAAGAGGA
EST: gi|33806065|gb|CF328912.1|CF328912
EST:     TCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAAC                         GGATGTGACACAACGACAACGCGAGTTAATGGAGGAATTTGATAAAGAGGA
genomic: TCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAACgtatgataca ... cgatgtacagGGATGTGACACAACGACAACGCGAGTTAATGGAGGAATTTGATAAAGAGGA
EST: gi|218496597|gb|FG964017.1|FG964017
EST:     TCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAAC                         GGATGTGACACAACGACAACGCGAGTTAATGGAGGAATTTGATAAAGAGGA
genomic: TCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAACgtatgataca ... cgatgtacagGGATGTGACACAACGACAACGCGAGTTAATGGAGGAATTTGATAAAGAGGA
EST: gi|86478861|gb|CI121494.1|CI121494
EST:     TCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAAC                         GGATGTGACACAACGACAACGCGAGTTAATGGAGGAATTTGATAAAGAGGA
genomic: TCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAACgtatgataca ... cgatgtacagGGATGTGACACAACGACAACGCGAGTTAATGGAGGAATTTGATAAAGAGGA
EST: gi|33806063|gb|CF328911.1|CF328911
EST:     TCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAAC                         GGATGTGACACAACGACAACGCGAGTTAATGGAGGAATTTGATAAAGAGGA
genomic: TCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAACgtatgataca ... cgatgtacagGGATGTGACACAACGACAACGCGAGTTAATGGAGGAATTTGATAAAGAGGA
EST: gi|89175720|gb|CI042741.1|CI042741
EST:     TCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAAC                         GGATGTGACACAACGACAACGCGAGTTAATGGAGGAATTTGATAAAGAGGA
genomic: TCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAACgtatgataca ... cgatgtacagGGATGTGACACAACGACAACGCGAGTTAATGGAGGAATTTGATAAAGAGGA
EST: gi|88845990|gb|CI084720.1|CI084720
EST:     TCCCCAGCCTATGGGAGTCAGTATATTCACTTCAACGTCCGAGTTCCAAC                         GGATGTGACACAACGACAACGCGAGTTAATGGAGGAATTTGATAAAGAGGA
genomic: TCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAACgtatgataca ... cgatgtacagGGATGTGACACAACGACAACGCGAGTTAATGGAGGAATTTGATAAAGAGGA
EST: gi|88228631|gb|CI228111.1|CI228111
EST:     TCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAAC                         GGATGTGACACAACGACAACGCGAGTTAATGGAGGAATTTGATAAAGAGGA
genomic: TCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAACgtatgataca ... cgatgtacagGGATGTGACACAACGACAACGCGAGTTAATGGAGGAATTTGATAAAGAGGA
EST: gi|58680289|gb|CK068976.1|CK068976
EST:     TCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAAC                         GGATGTGACACAACGACAACGCGAGTTAATGGAGGAATTTGATAAAGAGGA
genomic: TCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAACgtatgataca ... cgatgtacagGGATGTGACACAACGACAACGCGAGTTAATGGAGGAATTTGATAAAGAGGA
EST: gi|86501480|gb|CI144113.1|CI144113
EST:     TCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAAC                         GGATGTGACACAACGACAACGCGAGTTAATGGAGGAATTTGATAAAGAGGA
genomic: TCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAACgtatgataca ... cgatgtacagGGATGTGACACAACGACAACGCGAGTTAATGGAGGAATTTGATAAAGAGGA
EST: gi|88488210|gb|CI425481.1|CI425481
EST:     TCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAAC                         GGATGTGACACAACGACAACGCGAGTTAATGGAGGAATTTGATAAAGAGGA
genomic: TCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAACgtatgataca ... cgatgtacagGGATGTGACACAACGACAACGCGAGTTAATGGAGGAATTTGATAAAGAGGA
EST: gi|88228692|gb|CI228172.1|CI228172
EST:     TCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAAC                         GGATGTGACACAACGACAACGCGAGTTAATGGAGGAATTTGATAAAGAGGA
genomic: TCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAACgtatgataca ... cgatgtacagGGATGTGACACAACGACAACGCGAGTTAATGGAGGAATTTGATAAAGAGGA
EST: gi|58657698|gb|CK046378.1|CK046378
EST:     TCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAAC                         GGATGTGACACAACGACAACGCGAGTTAATGGAGGAATTTGATAAAGAGGA
genomic: TCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAACgtatgataca ... cgatgtacagGGATGTGACACAACGACAACGCGAGTTAATGGAGGAATTTGATAAAGAGGA
EST: gi|218487624|gb|FG950213.1|FG950213
EST:     TCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAAC                         GGATGTGACACAACGACAACGCGAGTTAATGGAGGAATTTGATAAAGAGGA
genomic: TCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAACgtatgataca ... cgatgtacagGGATGTGACACAACGACAACGCGAGTTAATGGAGGAATTTGATAAAGAGGA
EST: gi|86874336|gb|CI335948.1|CI335948
EST:     TCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAAC                         GGATGTGACACAACGACAACGCGAGTTAATGGAGGAATTTGATAAAGAGGA
genomic: TCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAACgtatgataca ... cgatgtacagGGATGTGACACAACGACAACGCGAGTTAATGGAGGAATTTGATAAAGAGGA
EST: gi|88243593|gb|CI243990.1|CI243990
EST:     TCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAAC                         GGATGTGACACAACGACAACGCGAGTTAATGGAGGAATTTGATAAAGAGGA
genomic: TCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAACgtatgataca ... cgatgtacagGGATGTGACACAACGACAACGCGAGTTAATGGAGGAATTTGATAAAGAGGA

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: 67 (upstream exon), 75 (downstream exon)
Score: 19

GAATAAAAGCACGGAATTCCCCAGCCTATGGGAATCAGTATATTCACTTCAACGTCCGAGTTCCAACgtatgataca ... cgatgtacagGGATGTGACACAACGACAACGCGAGTTAATGGAGGAATTTGATAAAGAGGAGTGCAACGAAGGGGAGAGAGTTGCAGCTGCCTCCGGATGAAATTTTGCC




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