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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggtaactgagtattactaccatatattccttatatgtgagtgcattgcacacatttgacttggcggctttcatttttaatgtagATGGCTCTCATCTCTTGGGCAGATCAAAGGAAATAACACACAGG

Basic information

species Zea mays
transcript GRMZM2G076276_T01
intron # 3
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|101385706|gb|EB814901.1|EB814901
EST:     GGCAACCCAACTTTGAACTGCAGAATATGTCCTCGAGTCAAAGGG                         ATGGCTCTCATCTCTTGGGCAGATCAAAGGAAATAACACACAGG
genomic: GGCAACCCAACTTTGAACTGCAGAATATGTCCTCGAGTCAAAGGGgtgggtaact ... tttaatgtagATGGCTCTCATCTCTTGGGCAGATCAAAGGAAATAACACACAGG
EST: gi|148957346|gb|EC903390.2|EC903390
EST:     GGGTAGGCAACCCAACTTTGAACTGCAGAATATGTCCTCGAGTCAAAGGG                         ATGGCTCTCATCTCTTGGGCAGATCAAAGGAAATAACACACAGG
genomic: GGGTAGGCAACCCAACTTTGAACTGCAGAATATGTCCTCGAGTCAAAGGGgtgggtaact ... tttaatgtagATGGCTCTCATCTCTTGGGCAGATCAAAGGAAATAACACACAGG
EST: gi|31351063|gb|CD435420.1|CD435420
EST:     GGGTAGGCAACCCAACTTTGAACTGCAGAATATGTCCTCGAGTCAAAGGG                         ATGGCTCTCATCTCTTGGGCAGATCAAAGGAAATAACACACAGG
genomic: GGGTAGGCAACCCAACTTTGAACTGCAGAATATGTCCTCGAGTCAAAGGGgtgggtaact ... tttaatgtagATGGCTCTCATCTCTTGGGCAGATCAAAGGAAATAACACACAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatatgtgagtgcattgcacacatttgacttggcggctttcatttttaatgtagATGGCTCTCATCTCTTGGGCAGATCAAAGGAAATAACACACAGG
                                            ttttaat  putative branch site (score: 3)
                                     ctttcattttt  CT-rich tract
                                      tttcatttttaatgta  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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgggtaactgagtattactaccatatattccttatatgtgagtgcattgcacacatttgacttggcggctttcatttttaatgtagATGGCTCTCATCTCTTGGGCAGATCAAAGGAAATAACACACAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA