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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCTTACAGTTGCTTCGTTTTGCTACCTACAGTTTTTCCCATATCCTTTCGATGGCGATGgtacatactattcactttttttactaactattgagttctcaggttatgttcaacatgtcacagaatattgcacaatctacttttcag

Basic information

species Zea mays
transcript GRMZM2G050658_T03
intron # 7
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|38229749|gb|CF920062.1|CF920062
EST:     TGCTTCGTTTTGCTACCTACAGTTTTTCCCATATCCTTTCGATGGCGATG                         CTTTGTGGCCTCACGCATACGCGGTTCGGGTTAGCCGAGGAGGGGGAACAG
genomic: TGCTTCGTTTTGCTACCTACAGTTTTTCCCATATCCTTTCGATGGCGATGgtacatacta ... tacttttcagCTTTGTGGCCTCACGCATACGCGGTCCGG-TTAGCCGAGGAGGGG-AACAG
EST: gi|78103665|gb|DV522093.1|DV522093
EST:     TGCTTCGTTTTGCTACCTACAGTTTTTCCCATATCCTTTCGATGGCGATG                         CTTTGTGGCCTCACGCATACGCGGTCCGGTTAGCCGAGGAGGGGAACAGCA
genomic: TGCTTCGTTTTGCTACCTACAGTTTTTCCCATATCCTTTCGATGGCGATGgtacatacta ... tacttttcagCTTTGTGGCCTCACGCATACGCGGTCCGGTTAGCCGAGGAGGGGAACAGCA
EST: gi|211132096|gb|FL293580.1|FL293580
EST:     TGCTTCGTTTTGCTACCTACAGTTTTTCCCATATCCTTTCGATGGCGATG                         CTTTGTGGCCTCACGCATACGCGGTCCGGTTAGCCGAGGAGGGGAACAGCA
genomic: TGCTTCGTTTTGCTACCTACAGTTTTTCCCATATCCTTTCGATGGCGATGgtacatacta ... tacttttcagCTTTGTGGCCTCACGCATACGCGGTCCGGTTAGCCGAGGAGGGGAACAGCA
EST: gi|149072273|gb|EE160529.2|EE160529
EST:     TGCTTCGTTTTGCTACCTACAGTTTTTCCCATATCCTTTCGATGGCGATG                         CTTTGTGGCCTCACGCATACGCGGTCCGGTTAGCCGAGGAGGGGAACAGCA
genomic: TGCTTCGTTTTGCTACCTACAGTTTTTCCCATATCCTTTCGATGGCGATGgtacatacta ... tacttttcagCTTTGTGGCCTCACGCATACGCGGTCCGGTTAGCCGAGGAGGGGAACAGCA
EST: gi|89759809|gb|DY688508.1|DY688508
EST:     TGCTTCGTTTTGCTACCTACAGTTTTTCCCATATCCTTTCGATGGCGATG                         CTTTGTGGCCTCACGCATACGCGGTCCGGTTAGCCGAGGAGGGGAACAGCA
genomic: TGCTTCGTTTTGCTACCTACAGTTTTTCCCATATCCTTTCGATGGCGATGgtacatacta ... tacttttcagCTTTGTGGCCTCACGCATACGCGGTCCGGTTAGCCGAGGAGGGGAACAGCA
EST: gi|13178326|gb|BG349584.1|BG349584
EST:     TGCTTCGTTTTGCTACCTACAGTTTTTCCCATATCCTTTCGATGGCGATG                         CTTTGTGGCCTCACGCATACGCGGTCCGGTTAGCCGAGGAGGGGAACAGCA
genomic: TGCTTCGTTTTGCTACCTACAGTTTTTCCCATATCCTTTCGATGGCGATGgtacatacta ... tacttttcagCTTTGTGGCCTCACGCATACGCGGTCCGGTTAGCCGAGGAGGGGAACAGCA
EST: gi|13178327|gb|BG349585.1|BG349585
EST:     TGCTTCGTTTTGCTACCTACAGTTTTTCCCATATCCTTTCGATGGCGATG                         CTTTGTGGCCTCACGCATACGCGGTCCGGTTAGCCGAGGAGGGGAACAGCA
genomic: TGCTTCGTTTTGCTACCTACAGTTTTTCCCATATCCTTTCGATGGCGATGgtacatacta ... tacttttcagCTTTGTGGCCTCACGCATACGCGGTCCGGTTAGCCGAGGAGGGGAACAGCA
EST: gi|32851914|gb|CD991595.1|CD991595
EST:     ACCTACAGTTTTTCCCATATCCTTTCGATGGCGATG                         CTTTGTGGCCTCACGCATACGCGGTCTGGTTAGCCGAGGAGGGGAACAGCA
genomic: ACCTACAGTTTTTCCCATATCCTTTCGATGGCGATGgtacatacta ... tacttttcagCTTTGTGGCCTCACGCATACGCGGTCCGGTTAGCCGAGGAGGGGAACAGCA
EST: gi|211413509|gb|FK952159.1|FK952159
EST:     TGCTTCGTTTTGCTACCTACAGTTTTTCCCATATCCTTTCGATGGCGATG                         CTTTGTGGCCTCACGCATACGCGGTCTGGTTAGCCGAGGAGGGGAACAGCA
genomic: TGCTTCGTTTTGCTACCTACAGTTTTTCCCATATCCTTTCGATGGCGATGgtacatacta ... tacttttcagCTTTGTGGCCTCACGCATACGCGGTCCGGTTAGCCGAGGAGGGGAACAGCA
EST: gi|86471570|gb|DY237940.1|DY237940
EST:     TGCTTCGTTTTGCTACCTACAGTTTTTCCCATATCCTTTCGATGGCGATG                         CTTTGTGGCCTCACGCATACGCGGTCCGGTTAGCCGAGGAGGGGAACAGCA
genomic: TGCTTCGTTTTGCTACCTACAGTTTTTCCCATATCCTTTCGATGGCGATGgtacatacta ... tacttttcagCTTTGTGGCCTCACGCATACGCGGTCCGGTTAGCCGAGGAGGGGAACAGCA

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 4 RNA-Seq libraries.


Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 15

GTCTTACAGTTGCTTCGTTTTGCTACCTACAGTTTTTCCCATATCCTTTCGATGGCGATGgtacatacta ... tacttttcagCTTTGTGGCCTCACGCATACGCGGTCCGGTTAGCCGAGGAGGGGAACAGCAGAAATGCGAACTCATACAGCGTGAGACCAACCGAAATCGAAACAGTCGA


Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 20

GTCTTACAGTTGCTTCGTTTTGCTACCTACAGTTTTTCCCATATCCTTTCGATGGCGATGgtacatacta ... tacttttcagCTTTGTGGCCTCACGCATACGCGGTCCGGTTAGCCGAGGAGGGGAACAGCAGAAATGCGAACTCATACAGCGTGAGACCAACCGAAATCGAAACAGTCGA


Block sizes: 49 (upstream exon), 42 (downstream exon)
Score: 16

GTCTTACAGTTGCTTCGTTTTGCTACCTACAGTTTTTCCCATATCCTTTCGATGGCGATGgtacatacta ... tacttttcagCTTTGTGGCCTCACGCATACGCGGTCCGGTTAGCCGAGGAGGGGAACAGCAGAAATGCGAACTCATACAGCGTGAGACCAACCGAAATCGAAACAGTCGA


Block sizes: 47 (upstream exon), 46 (downstream exon)
Score: 44

GTCTTACAGTTGCTTCGTTTTGCTACCTACAGTTTTTCCCATATCCTTTCGATGGCGATGgtacatacta ... tacttttcagCTTTGTGGCCTCACGCATACGCGGTCCGGTTAGCCGAGGAGGGGAACAGCAGAAATGCGAACTCATACAGCGTGAGACCAACCGAAATCGAAACAGTCGA