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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgctgacatcttttgtgttctcctagaaccaaaataagtttatacgtttgagttgttgaccttgtttatttatgtattatttaatgtattagGACTTGACTGGACGAGAGACTGATGCTGATAATCCTTGTAATGATGACGCCAAAGACGAAGAGGAGTTTTATGCTAAATCACCACCTCGAAATGACAAAA

Basic information

species Zea mays
transcript GRMZM2G152319_T02
intron # 12
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|6952326|gb|AW424394.1|AW424394
EST:     ACAATGAAGTTCATCCTTCAAATTCAGAAGGATTTCGAGGTTTTCTTCAG                         GACTTGACTGGACGAGAGACTGATGCTGATAATCCTTGTAATGATGACGCC
genomic: ACAATGAAGTTCATCCTTCAAATTCAGAAGGATTTCGAGGTTTTCTTCAGgtctgctgac ... aatgtattagGACTTGACTGGACGAGAGACTGATGCTGATAATCCTTGTAATGATGACGCC
EST: gi|84908455|gb|DW404333.1|DW404333
EST:     CAATGAAGTTCATCCTTCAAATTTCAGAAGGATTTCGAGGTTTTCTTCAG                         GACTTGACTGGACGAGAGACTGATGCTGATA
genomic: CAATGAAGTTCATCCTTCAAATT-CAGAAGGATTTCGAGGTTTTCTTCAGgtctgctgac ... aatgtattagGACTTGACTGGACGAGAGACTGATGCTGATA
EST: gi|6195038|gb|AW147142.1|AW147142
EST:     ACAATGAAGTTCATCCTTCAAATTCAGAAGGATTTCGAGGTTTTCTTCAG                         GACTTGACTGGACGAGAGACTGATGCTGATAATCCTTGTAATGATGACGCC
genomic: ACAATGAAGTTCATCCTTCAAATTCAGAAGGATTTCGAGGTTTTCTTCAGgtctgctgac ... aatgtattagGACTTGACTGGACGAGAGACTGATGCTGATAATCCTTGTAATGATGACGCC
EST: gi|6827796|gb|AW331439.1|AW331439
EST:     GGATTTCGAGGTTTTCTTCAG                         GACTTGACTGGACGAGAGACTGATGCTGATAATCCTTGTAATGATGACGCC
genomic: GGATTTCGAGGTTTTCTTCAGgtctgctgac ... aatgtattagGACTTGACTGGACGAGAGACTGATGCTGATAATCCTTGTAATGATGACGCC
EST: gi|6166619|gb|AW144883.1|AW144883
EST:     ACAATGAAGNTCATCCTTCAAATTCAGAAGGATTTCGAGGTTTTCTTCAG                         GACTTGACTGGACGAGAGACTGATGCTGATAATCCTTGTAATGATGACGCC
genomic: ACAATGAAGTTCATCCTTCAAATTCAGAAGGATTTCGAGGTTTTCTTCAGgtctgctgac ... aatgtattagGACTTGACTGGACGAGAGACTGATGCTGATAATCCTTGTAATGATGACGCC
EST: gi|21987664|gb|BQ779192.1|BQ779192
EST:     ACAATGAAGTTCATCCTTCAAATTCAGAAGGATTTCGAGGTTTTCTTCAG                         GACTTGACTGGACGAGAGACTGATGCTGATAATCCTTGTAATGATGACGCC
genomic: ACAATGAAGTTCATCCTTCAAATTCAGAAGGATTTCGAGGTTTTCTTCAGgtctgctgac ... aatgtattagGACTTGACTGGACGAGAGACTGATGCTGATAATCCTTGTAATGATGACGCC
EST: gi|6057103|gb|AW091508.1|AW091508
EST:     AGTTCATCCTTCAAATTCAGAAGGATTTCGAGGTTTTCTTCAG                         GACTTGACTGGACGAGAGACTGATGCTGATAATCCTTGTAATGATGACGCC
genomic: AGTTCATCCTTCAAATTCAGAAGGATTTCGAGGTTTTCTTCAGgtctgctgac ... aatgtattagGACTTGACTGGACGAGAGACTGATGCTGATAATCCTTGTAATGATGACGCC
EST: gi|32945441|gb|CF050260.1|CF050260
EST:     ACAATGAAGTTCATCCTTCAAATTCAGAAGGATTTCGAGGTTTTCTTCAG                         GACTTGACTGGACGAGAGACTGATGCTGATAATCCTTGTAATGATGACGCC
genomic: ACAATGAAGTTCATCCTTCAAATTCAGAAGGATTTCGAGGTTTTCTTCAGgtctgctgac ... aatgtattagGACTTGACTGGACGAGAGACTGATGCTGATAATCCTTGTAATGATGACGCC
EST: gi|71431160|gb|DR812210.1|DR812210
EST:     ACAATGAAGTTCATCCTTCAAATTCAGAAGGATTTCGAGGTTTTCTTCAG                         GACTTGACTGGACGAGAGACTGATGCTGATAATCCTTGTAATGATGACGCC
genomic: ACAATGAAGTTCATCCTTCAAATTCAGAAGGATTTCGAGGTTTTCTTCAGgtctgctgac ... aatgtattagGACTTGACTGGACGAGAGACTGATGCTGATAATCCTTGTAATGATGACGCC
EST: gi|6166618|gb|AW144882.1|AW144882
EST:     ACAATGAAGTTCATCCTTCAAATTCAGAAGGATTTCGAGGTTTTCTTCAG                         GACTTGACTGGACGAGAGACTGATGCTGATAATCCTTGTAATGATGACGCC
genomic: ACAATGAAGTTCATCCTTCAAATTCAGAAGGATTTCGAGGTTTTCTTCAGgtctgctgac ... aatgtattagGACTTGACTGGACGAGAGACTGATGCTGATAATCCTTGTAATGATGACGCC
EST: gi|93281627|gb|EB673891.1|EB673891
EST:     ACAATGAAGTTCATCCTTCAAATTCAGAAGGATTTCGAGGTTTTCTTCAG                         GACTTGACTGGACGAGAGACTGATGCTGATAATCCTTGTAATGATGACGCC
genomic: ACAATGAAGTTCATCCTTCAAATTCAGAAGGATTTCGAGGTTTTCTTCAGgtctgctgac ... aatgtattagGACTTGACTGGACGAGAGACTGATGCTGATAATCCTTGTAATGATGACGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttatacgtttgagttgttgaccttgtttatttatgtattatttaatgtattagGACTTGACTGGACGAGAGACTGATGCTGATAATCCTTGTAATGATGACGCCAAAGACGAAGAGGAGTTTTATGCTAAATCACCACCTCGAAATGACAAAA
                        ttgtttatttatgtat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtctgctgacatcttttgtgttctcctagaaccaaaataagtttatacgtttgagttgttgaccttgtttatttatgtattatttaatgtattagGACTTGACTGGACGAGAGACTGATGCTGATAATCCTTGTAATGATGACGCCAAAGACGAAGAGGAGTTTTATGCTAAATCACCACCTCGAAATGACAAAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG