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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtaaatatagtcctttggggctagtttggaagttcagacccccttgaaaattggaggggatttttcaaggggatttgagtttccaaactaacccttgggagtacctaccaccccactctccacctcaatgaacaccaaaaaaagagagaccataaatcctgcgtttcattttcagGATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATACCTGTTCCGATTGAAAAATGTAGAGGAGGCTACAAAACTATCGACAGCAA

Basic information

species Zea mays
transcript GRMZM2G086484_T02
intron # 10
splice site 3'
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|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|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|19769590|gb|BQ034311.1|BQ034311
EST:     TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCA                         GATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
genomic: TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCAgtaagtaaat ... tcattttcagGATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
EST: gi|71311912|gb|DR792439.1|DR792439
EST:     TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCA                         GATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
genomic: TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCAgtaagtaaat ... tcattttcagGATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
EST: gi|87153971|gb|DY398760.1|DY398760
EST:     TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCA                         GATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
genomic: TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCAgtaagtaaat ... tcattttcagGATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
EST: gi|211121251|gb|FL454290.1|FL454290
EST:     TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCA                         GATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
genomic: TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCAgtaagtaaat ... tcattttcagGATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
EST: gi|78024638|gb|DV493025.1|DV493025
EST:     TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCA                         GATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
genomic: TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCAgtaagtaaat ... tcattttcagGATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
EST: gi|71762836|gb|DR960773.1|DR960773
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|19822448|gb|BQ048472.1|BQ048472
EST:     TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCA                         GATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
genomic: TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCAgtaagtaaat ... tcattttcagGATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
EST: gi|37374586|gb|CF623668.1|CF623668
EST:     TAAAAATGAATCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCA                         GATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC
genomic: TAAAAATGAACCTTCAGAAGAATACGGTTGCTTCGATATTTCATACTTCAgtaagtaaat ... tcattttcagGATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cacctcaatgaacaccaaaaaaagagagaccataaatcctgcgtttcattttcagGATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATACCTGTTCCGATTGAAAAATGTAGAGGAGGCTACAAAACTATCGACAGCAA
                                           tttcattttc  CT-rich tract
                aaaaaaaga  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtaaatatagtcctttggggctagtttggaagttcagacccccttgaaaattggaggggatttttcaaggggatttgagtttccaaactaacccttgggagtacctaccaccccactctccacctcaatgaacaccaaaaaaagagagaccataaatcctgcgtttcattttcagGATGCACAATCAAGTGAATCAGCTGGTGACACAGTTGTAGCTCGAACATACCTGTTCCGATTGAAAAATGTAGAGGAGGCTACAAAACTATCGACAGCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG