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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGGTAAAATCCTCCTGAATGCTCTGATCTACAAGGGGATAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCAgtaagtaaatatagtcctttggggctagtttggaagttcagacccccttgaaaattggaggggatttttcaaggggatttgagtttccaaactaacccttgggagtacctaccaccccactctccacctcaatgaacaccaaaaaaagagagaccataaatcctgcgtttcattttcag

Basic information

species Zea mays
transcript GRMZM2G086484_T01
intron # 9
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|31352814|gb|CD437171.1|CD437171
EST:     TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCA                         GATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
genomic: TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCAgtaagtaaat ... tcattttcagGATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
EST: gi|60400869|gb|DN233676.1|DN233676
EST:     TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCA                         GATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
genomic: TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCAgtaagtaaat ... tcattttcagGATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
EST: gi|83278326|gb|DV942334.1|DV942334
EST:     TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCA                         GATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
genomic: TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCAgtaagtaaat ... tcattttcagGATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
EST: gi|12972011|gb|BG267769.1|BG267769
EST:     CTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCA                         GATGCACAATCAGAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATA
genomic: CTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCAgtaagtaaat ... tcattttcagGATGCACAATCA-AGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATA
EST: gi|6022289|gb|AW067217.1|AW067217
EST:     TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCA                         GATGCCCAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
genomic: TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCAgtaagtaaat ... tcattttcagGATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
EST: gi|19770206|gb|BQ034927.1|BQ034927
EST:     TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCA                         GATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
genomic: TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCAgtaagtaaat ... tcattttcagGATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
EST: gi|19351231|gb|BM895763.1|BM895763
EST:     TAAAAATGAACCTTCAGAAGAATACGGNTGCTTCGATATTTCATACTTCA                         GATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
genomic: TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCAgtaagtaaat ... tcattttcagGATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
EST: gi|31351667|gb|CD436024.1|CD436024
EST:     TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCA                         GATGCACAATCAAGTGAATCAGCTGGGGACACAGTTGTAGCTCGAACATAC
genomic: TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCAgtaagtaaat ... tcattttcagGATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
EST: gi|19770249|gb|BQ034970.1|BQ034970
EST:     TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCA                         GATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
genomic: TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCAgtaagtaaat ... tcattttcagGATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
EST: gi|18649762|gb|BM498581.1|BM498581
EST:     TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCA                         GATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
genomic: TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCAgtaagtaaat ... tcattttcagGATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
EST: gi|60355351|gb|DN222324.1|DN222324
EST:     TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCA                         GATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
genomic: TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCAgtaagtaaat ... tcattttcagGATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
EST: gi|71762836|gb|DR960773.1|DR960773
EST:     TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCA                         GATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
genomic: TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCAgtaagtaaat ... tcattttcagGATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
EST: gi|19769590|gb|BQ034311.1|BQ034311
EST:     TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCA                         GATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
genomic: TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCAgtaagtaaat ... tcattttcagGATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
EST: gi|87153971|gb|DY398760.1|DY398760
EST:     TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCA                         GATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
genomic: TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCAgtaagtaaat ... tcattttcagGATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
EST: gi|71311912|gb|DR792439.1|DR792439
EST:     TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCA                         GATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
genomic: TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCAgtaagtaaat ... tcattttcagGATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
EST: gi|211121251|gb|FL454290.1|FL454290
EST:     TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCA                         GATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
genomic: TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCAgtaagtaaat ... tcattttcagGATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
EST: gi|33091533|gb|CF051527.1|CF051527
EST:     TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATACTTCATACTTCA                         GATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTC
genomic: TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCAgtaagtaaat ... tcattttcagGATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTC
EST: gi|78024638|gb|DV493025.1|DV493025
EST:     TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCA                         GATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
genomic: TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCAgtaagtaaat ... tcattttcagGATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
EST: gi|19351230|gb|BM895762.1|BM895762
EST:     TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCA                         GATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
genomic: TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCAgtaagtaaat ... tcattttcagGATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
EST: gi|71315320|gb|DR794272.1|DR794272
EST:     TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCA                         GATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
genomic: TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCAgtaagtaaat ... tcattttcagGATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
EST: gi|22491304|gb|BU051227.1|BU051227
EST:     TAAAAATGAACCTTCACAAGAATACGGTTGCTTCGATATTTCATACTTCA                         GATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
genomic: TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCAgtaagtaaat ... tcattttcagGATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
EST: gi|37374586|gb|CF623668.1|CF623668
EST:     TAAAAATGAATCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCA                         GATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
genomic: TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCAgtaagtaaat ... tcattttcagGATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC

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 3 RNA-Seq libraries.


Block sizes: 46 (upstream exon), 45 (downstream exon)
Score: 12

GTTGGTAAAATCCTCCTGAATGCTCTGATCTACAAGGGGATAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCAgtaagtaaat ... tcattttcagGATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATACCTGTTCCGATTGAAAAATGTAGAGGAGGCTACAAAACTATCGACAGCAA


Block sizes: 14 (upstream exon), 36 (downstream exon)
Score: 1

GTTGGTAAAATCCTCCTGAATGCTCTGATCTACAAGGGGATAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCAgtaagtaaat ... tcattttcagGATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATACCTGTTCCGATTGAAAAATGTAGAGGAGGCTACAAAACTATCGACAGCAA


Block sizes: 24 (upstream exon), 47 (downstream exon)
Score: 2

GTTGGTAAAATCCTCCTGAATGCTCTGATCTACAAGGGGATAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCAgtaagtaaat ... tcattttcagGATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATACCTGTTCCGATTGAAAAATGTAGAGGAGGCTACAAAACTATCGACAGCAA