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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgcatgtgtggttcagaaaatatataggccttttttgtgacatttgaaccgttggacttattttactgtactgttttggtttcttccattctacacacagGTGACATAGATGGGGCAAGCCTAGTTACAAACTCTAATGTCATAGAAGATGATGATTTTCAAGGCAAGCCAACCAACAGTGGCACATCAAAGGAACTGTC

Basic information

species Zea mays
transcript GRMZM2G073427_T04
intron # 1
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|211302893|gb|FL267158.1|FL267158
EST:     TGCTCAAGAGGAAGCTCGACCTGTACTGCGCCGCCGTCGCCAAATCCATG                         GTGACATAGATGGGGCAAGCCTAGTTACAAACTCTAATGTCATAGAAGATG
genomic: TGCTCAAGAGGAAGCTCGACCTGTACTGCGCCGCCGTCGCCAAATCCATGgtgtggttcc ... ctacacacagGTGACATAGATGGGGCAAGCCTAGTTACAAACTCTAATGTCATAGAAGATG
EST: gi|149077399|gb|EE166085.2|EE166085
EST:     TGCTCAAGAGGAAGCTCGACCTGTACTGCGCCGCCGTCGCCAAATCCATG                         GTGACATAGATGGGGCAAGCCTAGTTACAAACTCTAATGTCATAGAAGATG
genomic: TGCTCAAGAGGAAGCTCGACCTGTACTGCGCCGCCGTCGCCAAATCCATGgtgtggttcc ... ctacacacagGTGACATAGATGGGGCAAGCCTAGTTACAAACTCTAATGTCATAGAAGATG
EST: gi|211441179|gb|FL267162.1|FL267162
EST:     TGCTCAAGAGGAAGCTCGACCTGTACTGCGCCGCCGTCGCCAAATCCATG                         GTGACATTTATGGGGCAAGCCTAGTTACAAACTCTAATGTCATAGAAGATG
genomic: TGCTCAAGAGGAAGCTCGACCTGTACTGCGCCGCCGTCGCCAAATCCATGgtgtggttcc ... ctacacacagGTGACATAGATGGGGCAAGCCTAGTTACAAACTCTAATGTCATAGAAGATG
EST: gi|211302896|gb|FL267161.1|FL267161
EST:     TGCTCAAGAGGAAGCTCGACCTGTACTGCGCCGCCGTCGCCAAATCCATG                         GTGACATAGATGGGGCAAGCCTAGTTACAAACTCTAATGTCATAGAAGATG
genomic: TGCTCAAGAGGAAGCTCGACCTGTACTGCGCCGCCGTCGCCAAATCCATGgtgtggttcc ... ctacacacagGTGACATAGATGGGGCAAGCCTAGTTACAAACTCTAATGTCATAGAAGATG
EST: gi|211441180|gb|FL267163.1|FL267163
EST:     TGCTCAAGAGGAAGCTCGACCTGTACTGCGCCGCCGTCGCCAAATCCATG                         GTGACATAGATGGGGCAAGCCTAGTTACAAACTCTAATGTCATAGAAGATG
genomic: TGCTCAAGAGGAAGCTCGACCTGTACTGCGCCGCCGTCGCCAAATCCATGgtgtggttcc ... ctacacacagGTGACATAGATGGGGCAAGCCTAGTTACAAACTCTAATGTCATAGAAGATG
EST: gi|211441181|gb|FL267164.1|FL267164
EST:     TGCTCAAGAGGAAGCTCGACCTGTACTGCGCCGCCGTCGCCAAATCCATG                         GTGACATAGATGGGGCAAGCCTAGTTACAAACTCTAATGTCATAGAAGATG
genomic: TGCTCAAGAGGAAGCTCGACCTGTACTGCGCCGCCGTCGCCAAATCCATGgtgtggttcc ... ctacacacagGTGACATAGATGGGGCAAGCCTAGTTACAAACTCTAATGTCATAGAAGATG
EST: gi|211302889|gb|FL267154.1|FL267154
EST:     TGCTCAAGAGGAAGCTCGACCTGTACTGCGCCGCCGTCGCCAAATCCATG                         GTGACATAGATGGGGCAAGCCTAGTTACAAACTCTAATGTCATAGAAGATG
genomic: TGCTCAAGAGGAAGCTCGACCTGTACTGCGCCGCCGTCGCCAAATCCATGgtgtggttcc ... ctacacacagGTGACATAGATGGGGCAAGCCTAGTTACAAACTCTAATGTCATAGAAGATG
EST: gi|211302894|gb|FL267159.1|FL267159
EST:     TGCTCAAGAGGAAGCTCGACCTGTACTGCGCCGCCGTCGCCAAATCCATG                         GTGACATAGATGGGGCAAGCCTAGTTACAAACTCTAATGTCATAGAAGATG
genomic: TGCTCAAGAGGAAGCTCGACCTGTACTGCGCCGCCGTCGCCAAATCCATGgtgtggttcc ... ctacacacagGTGACATAGATGGGGCAAGCCTAGTTACAAACTCTAATGTCATAGAAGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaaccgttggacttattttactgtactgttttggtttcttccattctacacacagGTGACATAGATGGGGCAAGCCTAGTTACAAACTCTAATGTCATAGAAGATGATGATTTTCAAGGCAAGCCAACCAACAGTGGCACATCAAAGGAACTGTC
                                  tttcttccattctac  CT-rich tract
          acttatttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgcatgtgtggttcagaaaatatataggccttttttgtgacatttgaaccgttggacttattttactgtactgttttggtttcttccattctacacacagGTGACATAGATGGGGCAAGCCTAGTTACAAACTCTAATGTCATAGAAGATGATGATTTTCAAGGCAAGCCAACCAACAGTGGCACATCAAAGGAACTGTC

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