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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggtacctaatggctgagaatgagatgcttaggtgtgtactacgagtcaagattgactactgacgcatctctcgtcctatgtatggcaatggcaactgcagGAGGCGCCTATGCAGGAAGAGGAGAACCGGTCCGAGCCGGCGTGTCCCCAGCCGTTCCCCTCCTGGGCATGGCAAACGCAGGGCTCCCGTGCCCCAGTTC

Basic information

species Zea mays
transcript GRMZM2G176175_T02
intron # 9
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|30705179|gb|CD058684.1|CD058684
EST:     TCCACATCTGTATGCATCTCCTTGTCCAGTCTTCTTTGTG-CCCTCAGG                         GAGGCGCCTATGCAGGAAGAGGAGACCCGGTCCGAGCCGGCGTGTCCCCAG
genomic: TCCACATCTGTATGCATCTCCTTGTCCAGGCTTCTTTGTGAACCTCAGGgtaactctta ... gcaactgcagGAGGCGCCTATGCAGGAAGAGGAGAACCGGTCCGAGCCGGCGTGTCCCCAG
EST: gi|149088443|gb|EE177546.2|EE177546
EST:     ATCCACATCTGTATGCATCTCCTTGTCCAGGCTTCTTTGTGAACCTCAGG                         GAGGCGCCTATGCAGGAAGAGGAGAACCGGTCCGAGCCGGCGTGTCCCCAG
genomic: ATCCACATCTGTATGCATCTCCTTGTCCAGGCTTCTTTGTGAACCTCAGGgtaactctta ... gcaactgcagGAGGCGCCTATGCAGGAAGAGGAGAACCGGTCCGAGCCGGCGTGTCCCCAG
EST: gi|110223465|gb|EC905363.1|EC905363
EST:     ATCCACATCTGTATGCATCTCCTTGTCCAGGCTTCTTTGTGAACCTCAGG                         GAGGCGCCTATGCAGGAAGAGGAGAACCGGTCCGAGCCGGCGTGTCCCCAG
genomic: ATCCACATCTGTATGCATCTCCTTGTCCAGGCTTCTTTGTGAACCTCAGGgtaactctta ... gcaactgcagGAGGCGCCTATGCAGGAAGAGGAGAACCGGTCCGAGCCGGCGTGTCCCCAG
EST: gi|30705182|gb|CD058685.1|CD058685
EST:     ATCCACATCTGTATGCATCTCCTTGTCCAGGCTTCTTTGTGAACCTCAGG                         GAGGCGCCTATGCAGGAAGAGGAGAACCGGTCCGAGCCGGCGTGTCCCCAG
genomic: ATCCACATCTGTATGCATCTCCTTGTCCAGGCTTCTTTGTGAACCTCAGGgtaactctta ... gcaactgcagGAGGCGCCTATGCAGGAAGAGGAGAACCGGTCCGAGCCGGCGTGTCCCCAG
EST: gi|29543664|gb|CB604044.1|CB604044
EST:     ATCCACATCTGTATGCATCTCCTTGTCCAGGCTTCTTTGTGAACCTCAGG                         GAGGCGCCTATGCAGGAAGAGGAGAACCGGTCCGAGCCGGCGTGTCCCCAG
genomic: ATCCACATCTGTATGCATCTCCTTGTCCAGGCTTCTTTGTGAACCTCAGGgtaactctta ... gcaactgcagGAGGCGCCTATGCAGGAAGAGGAGAACCGGTCCGAGCCGGCGTGTCCCCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaagattgactactgacgcatctctcgtcctatgtatggcaatggcaactgcagGAGGCGCCTATGCAGGAAGAGGAGAACCGGTCCGAGCCGGCGTGTCCCCAGCCGTTCCCCTCCTGGGCATGGCAAACGCAGGGCTCCCGTGCCCCAGTTC
           tactgac  putative branch site (score: 1)
                               tatgtat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggtacctaatggctgagaatgagatgcttaggtgtgtactacgagtcaagattgactactgacgcatctctcgtcctatgtatggcaatggcaactgcagGAGGCGCCTATGCAGGAAGAGGAGAACCGGTCCGAGCCGGCGTGTCCCCAGCCGTTCCCCTCCTGGGCATGGCAAACGCAGGGCTCCCGTGCCCCAGTTC

- - - - atggctg
- - - - - - - - - - - -atgctta
- - - - - - - - - - - - - - - - - - - - - - - - - - - -ctactga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atgtatg