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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCCTGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAGgtgggcttttgattaggtaaacattttttgttttggtcgagtatgattatttatgtgctcatctatttgtatag

Basic information

species Zea mays
transcript GRMZM2G098815_T04
intron # 4
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|71438169|gb|DR819219.1|DR819219
EST:     TGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAG                         GTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTA
genomic: TGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAGgtgggctttt ... atttgtatagGTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTA
EST: gi|78117671|gb|DV536058.1|DV536058
EST:     TGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAG                         GTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTA
genomic: TGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAGgtgggctttt ... atttgtatagGTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTA
EST: gi|148952745|gb|EC898726.2|EC898726
EST:     TGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAG                         GTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTA
genomic: TGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAGgtgggctttt ... atttgtatagGTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTA
EST: gi|71438316|gb|DR819366.1|DR819366
EST:     TGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAG                         GTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTA
genomic: TGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAGgtgggctttt ... atttgtatagGTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTA
EST: gi|74245464|gb|DT653378.1|DT653378
EST:     TGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAG                         GTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTA
genomic: TGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAGgtgggctttt ... atttgtatagGTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTA
EST: gi|71433709|gb|DR814759.1|DR814759
EST:     TGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAG                         GTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTA
genomic: TGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAGgtgggctttt ... atttgtatagGTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTA
EST: gi|76926415|gb|DV170849.1|DV170849
EST:     TGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAG                         GTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTA
genomic: TGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAGgtgggctttt ... atttgtatagGTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTA
EST: gi|149082609|gb|EE171808.2|EE171808
EST:     TGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAG                         GTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTA
genomic: TGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAGgtgggctttt ... atttgtatagGTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTA
EST: gi|50336738|gb|CO531864.1|CO531864
EST:     TGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAG                         GTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTA
genomic: TGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAGgtgggctttt ... atttgtatagGTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTA
EST: gi|89253146|gb|DY624932.1|DY624932
EST:     TGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAG                         GTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTA
genomic: TGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAGgtgggctttt ... atttgtatagGTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTA
EST: gi|211052434|gb|FL214545.1|FL214545
EST:     TGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAG                         GTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTA
genomic: TGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAGgtgggctttt ... atttgtatagGTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTA
EST: gi|71765717|gb|DR963654.1|DR963654
EST:     TGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAG                         GTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTA
genomic: TGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAGgtgggctttt ... atttgtatagGTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTA
EST: gi|91873215|gb|EB403172.1|EB403172
EST:     TGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAG                         GTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTA
genomic: TGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAGgtgggctttt ... atttgtatagGTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTA
EST: gi|149076111|gb|EE164690.2|EE164690
EST:     TGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAG                         GTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTA
genomic: TGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAGgtgggctttt ... atttgtatagGTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTA
EST: gi|14245049|gb|BG873631.1|BG873631
EST:     TGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAG                         GTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTA
genomic: TGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAGgtgggctttt ... atttgtatagGTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTA
EST: gi|78120056|gb|DV538440.1|DV538440
EST:     TGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAG                         GTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTA
genomic: TGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAGgtgggctttt ... atttgtatagGTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTA
EST: gi|148960798|gb|EE011460.2|EE011460
EST:     TGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAG                         GTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTA
genomic: TGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAGgtgggctttt ... atttgtatagGTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTA

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: 48 (upstream exon), 49 (downstream exon)
Score: 109

GTCCTGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAGgtgggctttt ... atttgtatagGTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTACATTCCTCGCCTCAGACTAGTAGTTTCACAGCTCCTGCAGTTAGAAGTG


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 119

GTCCTGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAGgtgggctttt ... atttgtatagGTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTACATTCCTCGCCTCAGACTAGTAGTTTCACAGCTCCTGCAGTTAGAAGTG


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 118

GTCCTGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAGgtgggctttt ... atttgtatagGTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTACATTCCTCGCCTCAGACTAGTAGTTTCACAGCTCCTGCAGTTAGAAGTG


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 80

GTCCTGAATCAGTCTGCCCTTGATTACATAAATGGATCTGTTTCAGCATCTCAGgtgggctttt ... atttgtatagGTCTTTTTGCCTCGGGAACAACTTGAGAAGCAATACTGCAGTACTGGTGTACATTCCTCGCCTCAGACTAGTAGTTTCACAGCTCCTGCAGTTAGAAGTG