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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCCGTCACCCAGAGCTCGGGTTGTCGCCGTCCGAGCCGCCGGCACTCAGCGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCACgtcggttacctgacgccctgatatctgccggtgtcatcacttctgcatgtggtgatggtgttggtcagttgacagtgtggcgtctctgattgcag

Basic information

species Zea mays
transcript GRMZM2G103101_T02
intron # 1
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|13126673|gb|BG317243.1|BG317243
EST:     CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCAC                         ACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCGA
genomic: CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCACgtcggttacc ... ctgattgcagACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCGA
EST: gi|78022949|gb|DV491336.1|DV491336
EST:     CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCAC                         ACTACCAGGTGACTTCGGCTTCGACCCCCTGGGCCTCGGCGAGGAGCCCGA
genomic: CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCACgtcggttacc ... ctgattgcagACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCGA
EST: gi|211329945|gb|FL040612.1|FL040612
EST:     CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCAC                         ACTCCCAGGTGACTTCGGCTTCGACCCCCTGGGCCTCGGAGAGGAGCCCGA
genomic: CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCACgtcggttacc ... ctgattgcagACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCGA
EST: gi|149111433|gb|EE294936.2|EE294936
EST:     CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCAC                         ACTACCAGGTGACTTCGGCTTCGACCCCCTGGGCCTCGGCGAGGAGCCCGA
genomic: CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCACgtcggttacc ... ctgattgcagACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCGA
EST: gi|211329944|gb|FL040611.1|FL040611
EST:     CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCAC                         ACTCCCAGGTGACTTCGGCTTCGACCCCCTGGGCCTCGGAGAGGAGCCCGA
genomic: CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCACgtcggttacc ... ctgattgcagACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCGA
EST: gi|149077487|gb|EE166183.2|EE166183
EST:     CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCAC                         ACTACCAGGTGACTTCGGCTTCGACCCCCTGGGCCTCGGCGAGGAGCCCGA
genomic: CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCACgtcggttacc ... ctgattgcagACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCGA
EST: gi|94472956|gb|EB701914.1|EB701914
EST:     CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCAC                         ACTACCAAGTGACTTCGGCTTCAACCCCCTGGGCCTCGGCGAGGAGCCCGA
genomic: CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCACgtcggttacc ... ctgattgcagACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCGA
EST: gi|211329942|gb|FL040609.1|FL040609
EST:     CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCAC                         ACTCCCAGGTGACTTCGGCTTCGACCCCCTGGGCCTCGGAGAGGAGCCCGA
genomic: CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCACgtcggttacc ... ctgattgcagACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCGA
EST: gi|13516123|gb|BG518399.1|BG518399
EST:     CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCAC                         ACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCGA
genomic: CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCACgtcggttacc ... ctgattgcagACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCGA
EST: gi|211327787|gb|FL040601.1|FL040601
EST:     CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCAC                         ACTCCCAGGTGACTTCGGCTTCGACCCCCTGGGCCTCGGAGAGGAGCCCGA
genomic: CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCACgtcggttacc ... ctgattgcagACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCGA
EST: gi|211327788|gb|FL040602.1|FL040602
EST:     CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCAC                         ACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCCA
genomic: CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCACgtcggttacc ... ctgattgcagACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCGA
EST: gi|211327789|gb|FL040603.1|FL040603
EST:     CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCAC                         ACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCGA
genomic: CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCACgtcggttacc ... ctgattgcagACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCGA
EST: gi|149100656|gb|EE186744.2|EE186744
EST:     CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCAC                         ACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCGA
genomic: CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCACgtcggttacc ... ctgattgcagACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCGA
EST: gi|211329943|gb|FL040610.1|FL040610
EST:     CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCAC                         ACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCGA
genomic: CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCACgtcggttacc ... ctgattgcagACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCGA
EST: gi|211329938|gb|FL040605.1|FL040605
EST:     CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCAC                         ACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCGA
genomic: CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCACgtcggttacc ... ctgattgcagACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCGA
EST: gi|211329939|gb|FL040606.1|FL040606
EST:     CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCAC                         ACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCGA
genomic: CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCACgtcggttacc ... ctgattgcagACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCGA
EST: gi|148994267|gb|EE034026.2|EE034026
EST:     CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCAC                         ACTACCAGGTGACTTCGGCTTCGACCCCCTGGGCCTCGGCGAGGAGCCCGA
genomic: CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCACgtcggttacc ... ctgattgcagACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCGA
EST: gi|148995804|gb|EE035035.2|EE035035
EST:     CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCAC                         ACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCGA
genomic: CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCACgtcggttacc ... ctgattgcagACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCGA
EST: gi|148967697|gb|EE018962.2|EE018962
EST:     CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCAC                         ACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCGA
genomic: CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCACgtcggttacc ... ctgattgcagACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCGA
EST: gi|148987230|gb|EE031063.2|EE031063
EST:     CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCAC                         ACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCGA
genomic: CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCACgtcggttacc ... ctgattgcagACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCGA
EST: gi|211327784|gb|FL040598.1|FL040598
EST:     CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCAC                         ACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCGA
genomic: CGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCACgtcggttacc ... ctgattgcagACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCGA

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 2 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 258

GGCCGTCACCCAGAGCTCGGGTTGTCGCCGTCCGAGCCGCCGGCACTCAGCGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCACgtcggttacc ... ctgattgcagACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCGAAGCCTTGAAGTGGTACGTTCAGGCCGAGCTCGTGCACTGCCGGTTCGCC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 53

GGCCGTCACCCAGAGCTCGGGTTGTCGCCGTCCGAGCCGCCGGCACTCAGCGGGCGACCTGGTTGCCCGGACTGGACCCGCCCCCATACCTCGACGGCACgtcggttacc ... ctgattgcagACTACCAGGTGACTTCGGCTTCGACCCTCTGGGCCTCGGCGAGGAGCCCGAAGCCTTGAAGTGGTACGTTCAGGCCGAGCTCGTGCACTGCCGGTTCGCC




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