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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAACCTTGCAAACAACAACCTTATAGGACCTATCCCTGAGAATTTAAGTTCATGTGCAAATCTCATTAGTTTgtaagttccatctgttctcctgaagttttatggtacgtttggtggttcggtacataaccttctggctcttgtaacag

Basic information

species Zea mays
transcript GRMZM2G463904_T03
intron # 15
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|211045102|gb|FL385027.1|FL385027
EST:     ATAGGACCTATCCCTGAGAATTTAAGTTCATGCGCAAATCTCATTAGTTT                         CAATGCTTAAGGCAATAACTTGAATGGAACCATTCCACGTTCATTTCACAA
genomic: ATAGGACCTATCCCTGAGAATTTAAGTTCATGTGCAAATCTCATTAGTTTgtaagttcca ... cttgtaacagCAATGCTTATGGCAATAAATTGAATGGAACCATTCCACGTTCATTTCACAA
EST: gi|211374959|gb|FL429401.1|FL429401
EST:     ATAGGACCTATCCCTGAGAATTTAAGTTCATGCGCAAATCTCATTAGTTT                         CAATGCTTATGGCAATAACTTGAATGGAACCATTCCACGTTCATTTCACAA
genomic: ATAGGACCTATCCCTGAGAATTTAAGTTCATGTGCAAATCTCATTAGTTTgtaagttcca ... cttgtaacagCAATGCTTATGGCAATAAATTGAATGGAACCATTCCACGTTCATTTCACAA
EST: gi|71447930|gb|DR828980.1|DR828980
EST:     ATAGGACCTATCCCTGAGAATTTAAGTTCATGTGCAAATCTCATTAGTTT                         CAATGCTTATGGCAATAAATTGAATGGAACCATTCCACGTTCATTTCACAA
genomic: ATAGGACCTATCCCTGAGAATTTAAGTTCATGTGCAAATCTCATTAGTTTgtaagttcca ... cttgtaacagCAATGCTTATGGCAATAAATTGAATGGAACCATTCCACGTTCATTTCACAA
EST: gi|71447931|gb|DR828981.1|DR828981
EST:     ATAGGACCTATCCCTGAGAATTTAAGTTCATGTGCAAATCTCATTAGTTT                         CAATGCTTATGGCAATAAATTGAATGGAACCATTCCACGTTCATTTCACAA
genomic: ATAGGACCTATCCCTGAGAATTTAAGTTCATGTGCAAATCTCATTAGTTTgtaagttcca ... cttgtaacagCAATGCTTATGGCAATAAATTGAATGGAACCATTCCACGTTCATTTCACAA
EST: gi|211131186|gb|FL407402.1|FL407402
EST:     ATAGGACCTATCCCTGAGAATTTAAGTTCATGCGCAAATCTCATTAGTTT                         CAATGCTTATGGCAATAACTTGAATGGAACCATTCCACGTTCATTTCACAA
genomic: ATAGGACCTATCCCTGAGAATTTAAGTTCATGTGCAAATCTCATTAGTTTgtaagttcca ... cttgtaacagCAATGCTTATGGCAATAAATTGAATGGAACCATTCCACGTTCATTTCACAA
EST: gi|101392872|gb|EB818367.1|EB818367
EST:     ATAGGACCTATCCCTGAGAATTTAAGTTCATGTGCAAATCTCATTAGTTT                         CAATGCTTATGGCAATAAATTGAATGGAACCATTCCACGTTCATTTCACAA
genomic: ATAGGACCTATCCCTGAGAATTTAAGTTCATGTGCAAATCTCATTAGTTTgtaagttcca ... cttgtaacagCAATGCTTATGGCAATAAATTGAATGGAACCATTCCACGTTCATTTCACAA

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: 49 (upstream exon), 49 (downstream exon)
Score: 190

GAACCTTGCAAACAACAACCTTATAGGACCTATCCCTGAGAATTTAAGTTCATGTGCAAATCTCATTAGTTTgtaagttcca ... cttgtaacagCAATGCTTATGGCAATAAATTGAATGGAACCATTCCACGTTCATTTCACAAGCTTGAGAGTCTGACTTATCT


Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 50

GAACCTTGCAAACAACAACCTTATAGGACCTATCCCTGAGAATTTAAGTTCATGTGCAAATCTCATTAGTTTgtaagttcca ... cttgtaacagCAATGCTTATGGCAATAAATTGAATGGAACCATTCCACGTTCATTTCACAAGCTTGAGAGTCTGACTTATCT


Block sizes: 29 (upstream exon), 21 (downstream exon)
Score: 1

GAACCTTGCAAACAACAACCTTATAGGACCTATCCCTGAGAATTTAAGTTCATGTGCAAATCTCATTAGTTTgtaagttcca ... cttgtaacagCAATGCTTATGGCAATAAATTGAATGGAACCATTCCACGTTCATTTCACAAGCTTGAGAGTCTGACTTATCT


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

GAACCTTGCAAACAACAACCTTATAGGACCTATCCCTGAGAATTTAAGTTCATGTGCAAATCTCATTAGTTTgtaagttcca ... cttgtaacagCAATGCTTATGGCAATAAATTGAATGGAACCATTCCACGTTCATTTCACAAGCTTGAGAGTCTGACTTATCT