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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttcttctcatacataaatcttcatacaagatgagctaactcgttaacggcgctgcaagcctctacaaatcttacaaataaatcgaatggctttaattactccttttccaattcttcaaacagATTGCGTTCTTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAA

Basic information

species Oryza sativa
transcript LOC_Os01g09300.3
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g09300.2 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G147882_T02 (Zea mays), 3'ss of exon 9
gtaagtttcttctcatacataaatcttcatacaagatgagctaactcgttaacggcgctgcaagcctctacaaatcttacaaataaatcgaatggctttaattactccttttccaattcttcaaacagATTGCGTTCTTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAA
               | ||     |     ||   |  |  || || | |   |    ||     ||||  |        || | |    | ||||         |  | |  |  |   |  ||||||| || | ||| ||||||||||||||||| ||||| || ||||||||||| |||||||| || |||||||||||||||||
---------------tccagctgccgctggacggaagcatatatctggctggtgataatg-----ctctgaa------ctaactgatctcagtggcggcgg--ggtgttctcgccttgtcttgaacagATAGCCTACTTCGTGGAACCAAGCCACGACTGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAA
















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|29638841|gb|CB643850.1|CB643850
EST:     GTCAACCTTACATCGAGTGGTCTTAGATGGACGAGAACGTCATTCT                         ATTGCGTTCTTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCCA
genomic: GTCAACCTTACATCGAGTGGTCTTAGATGGACGAGAACGTCATTCTgtaagtttct ... cttcaaacagATTGCGTTCTTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCCA
EST: gi|22307986|gb|BQ909208.1|BQ909208
EST:     AGATGGACGAGAACGTCATTCT                         ATTGCGTTCTGTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCC
genomic: AGATGGACGAGAACGTCATTCTgtaagtttct ... cttcaaacagATTGCGTTCT-TTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCC
EST: gi|29662625|gb|CB658900.1|CB658900
EST:     GTCAACCTTACATCGAGTGGTCTTAGATGGACGAGAACGTCATTCT                         ATTGCGTTCTTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCCA
genomic: GTCAACCTTACATCGAGTGGTCTTAGATGGACGAGAACGTCATTCTgtaagtttct ... cttcaaacagATTGCGTTCTTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCCA
EST: gi|33690519|gb|CF318758.1|CF318758
EST:     GTCAACCTTACATCGAGTGGTCTTAGATGGACGAGAACGTCATTCT                         ATTGCGTTCTTTGTGGAACCAAGCCCACGATTGCGTAGTCGAGTGCCTGCC
genomic: GTCAACCTTACATCGAGTGGTCTTAGATGGACGAGAACGTCATTCTgtaagtttct ... cttcaaacagATTGCGTTCTTTGTGGAACCAAG-CCACGATTGCGTAGTCGAGTGCCTGCC
EST: gi|25803965|gb|CA759926.1|CA759926
EST:     GTCAACCTTACATCGAGTGGTCTTAGATGGACGAGAACGTCATTCT                         ATTGCGTTCTTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCCA
genomic: GTCAACCTTACATCGAGTGGTCTTAGATGGACGAGAACGTCATTCTgtaagtttct ... cttcaaacagATTGCGTTCTTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCCA
EST: gi|33690409|gb|CF318648.1|CF318648
EST:     GTCAACCTTACATCGAGTGGTCTTAGATGGACGAGAACGTCATTCT                         ATTGCGTTCTTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCCA
genomic: GTCAACCTTACATCGAGTGGTCTTAGATGGACGAGAACGTCATTCTgtaagtttct ... cttcaaacagATTGCGTTCTTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCCA
EST: gi|29615163|gb|CB620176.1|CB620176
EST:     GTCAACCTTACATCGAGTGGTCTTAGATGGACGAGAACGTCATTCT                         ATTGCGTTCTTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCCA
genomic: GTCAACCTTACATCGAGTGGTCTTAGATGGACGAGAACGTCATTCTgtaagtttct ... cttcaaacagATTGCGTTCTTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCCA
EST: gi|33655635|gb|CF278249.1|CF278249
EST:     TGGACGAGAACGTCATTCT                         ATTGCGTTCTTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCCA
genomic: TGGACGAGAACGTCATTCTgtaagtttct ... cttcaaacagATTGCGTTCTTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCCA
EST: gi|29678794|gb|CB675069.1|CB675069
EST:     GTCAACCTTACATCGAGTGGTCTTAGATGGACGAGAACGTCATTCT                         ATTGCGTTCTTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCCA
genomic: GTCAACCTTACATCGAGTGGTCTTAGATGGACGAGAACGTCATTCTgtaagtttct ... cttcaaacagATTGCGTTCTTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCCA
EST: gi|29615162|gb|CB620175.1|CB620175
EST:     GTCAACCTTACATCGAGTGGTCTTAGATGGACGAGAACGTCATTCT                         ATTGCGTTCTTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCCA
genomic: GTCAACCTTACATCGAGTGGTCTTAGATGGACGAGAACGTCATTCTgtaagtttct ... cttcaaacagATTGCGTTCTTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCCA
EST: gi|33658108|gb|CF280722.1|CF280722
EST:     GATGGACGAGAACGTCATTCT                         ATTGCGTTCTTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCCA
genomic: GATGGACGAGAACGTCATTCTgtaagtttct ... cttcaaacagATTGCGTTCTTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCCA
EST: gi|38473536|gb|CF957668.1|CF957668
EST:     GTCAACCTTACATCGAGTGGTCTTAGATGGACGAGAACGTCATTCT                         ATTGCGTTCTTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCCA
genomic: GTCAACCTTACATCGAGTGGTCTTAGATGGACGAGAACGTCATTCTgtaagtttct ... cttcaaacagATTGCGTTCTTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCCA
EST: gi|33683276|gb|CF311515.1|CF311515
EST:     GTCAACCCTTACATCGAGTGGTCTTAGATGGACGAGAACGTCATTCT                         ATTGCGTTCTTTGTGGAACCAAGCCCACGATTGCGTAGTCGAGTGCCTGCC
genomic: GTCAA-CCTTACATCGAGTGGTCTTAGATGGACGAGAACGTCATTCTgtaagtttct ... cttcaaacagATTGCGTTCTTTGTGGAACCAAG-CCACGATTGCGTAGTCGAGTGCCTGCC
EST: gi|27546279|gb|CA767193.2|CA767193
EST:     GTCAACCTTACATCGAGTGGTCTTAGATGGACGAGAACGTCATTCT                         ATTGCGTTCTTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCCA
genomic: GTCAACCTTACATCGAGTGGTCTTAGATGGACGAGAACGTCATTCTgtaagtttct ... cttcaaacagATTGCGTTCTTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCCA
EST: gi|29665424|gb|CB661699.1|CB661699
EST:     GTCAACCTTACATCGAGTGGTCTTAGATGGACGAGAACGTCATTCT                         ATTGCGTTCTTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCCA
genomic: GTCAACCTTACATCGAGTGGTCTTAGATGGACGAGAACGTCATTCTgtaagtttct ... cttcaaacagATTGCGTTCTTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCCA
EST: gi|29655813|gb|CB652088.1|CB652088
EST:     GTCAACCTTACATCGAGTGGTCTTAGATGGACGAGAACGTCATTCT                         ATTGCGTTCTTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCCA
genomic: GTCAACCTTACATCGAGTGGTCTTAGATGGACGAGAACGTCATTCTgtaagtttct ... cttcaaacagATTGCGTTCTTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCCA
EST: gi|33677763|gb|CF306002.1|CF306002
EST:     GTCAACCTTACATCGAGTGGTCTTAGATGGACGAGAACGTCATTCT                         ATTGCGTTCTTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCCA
genomic: GTCAACCTTACATCGAGTGGTCTTAGATGGACGAGAACGTCATTCTgtaagtttct ... cttcaaacagATTGCGTTCTTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCCA
EST: gi|38471976|gb|CF956107.1|CF956107
EST:     GTCAACCTTACATCGAGTGGTCTTAGATGGACGAGAACGTCATTCT                         ATTGCGTTCTTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCCA
genomic: GTCAACCTTACATCGAGTGGTCTTAGATGGACGAGAACGTCATTCTgtaagtttct ... cttcaaacagATTGCGTTCTTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcttacaaataaatcgaatggctttaattactccttttccaattcttcaaacagATTGCGTTCTTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAA
                            ttactccttttccaat  CT-rich tract
     acaaataaat  TA-rich tract