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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttcatcatgctcacatgttcctcaaaagtcttaaaaacaactggttctaaatgtttctcatgtgatcagAAATATAGGTTAGGTAAACAATCTGATAAAGAGGGGTCAGAGCAATCTAAAGATG

Basic information

species Zea mays
transcript GRMZM2G064197_T03
intron # 2
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|76292621|gb|DV032189.1|DV032189
EST:     CGATGGGTGTCAAGGGTCTTACTCTTTTCCACTTGAAGAGTCATCTTCAG                         AAATATAGGTTAGGTAAACAATCTGATAAAGAGGGGTCAGAGCAATCTAAA
genomic: CGATGGGTGTCAAGGGTCTTACTCTTTTCCACTTGAAGAGTCATCTTCAGgtacttcatc ... atgtgatcagAAATATAGGTTAGGTAAACAATCTGATAAAGAGGGGTCAGAGCAATCTAAA
EST: gi|50333124|gb|CO528250.1|CO528250
EST:     CGATGGGTGTCAAGGGTCTTACTCTTTTCCACTTGAAGAGTCATCTTCAG                         AAATATAGGTTAGGTAAACAATCTGATAAAGAGGGGTCAGAGCAATCTAAA
genomic: CGATGGGTGTCAAGGGTCTTACTCTTTTCCACTTGAAGAGTCATCTTCAGgtacttcatc ... atgtgatcagAAATATAGGTTAGGTAAACAATCTGATAAAGAGGGGTCAGAGCAATCTAAA
EST: gi|211350797|gb|FL389770.1|FL389770
EST:     CGATGGGTGTCAAGGGTCTTACTCTTTTCCACTTGAAGAGTCATCTTCAG                         AAATATAGGTTAGGTAAACAATCTGGTAAAGAGGGGTCAGAGCAATCTAAA
genomic: CGATGGGTGTCAAGGGTCTTACTCTTTTCCACTTGAAGAGTCATCTTCAGgtacttcatc ... atgtgatcagAAATATAGGTTAGGTAAACAATCTGATAAAGAGGGGTCAGAGCAATCTAAA
EST: gi|87156993|gb|DY401782.1|DY401782
EST:     CGATGGGTGTCAAGGGTCTTACTCTTTTCCACTTGAAGAGTCATCTTCAG                         AAATATAGGTTAGGTAAACAATCTGGTAAAGAGGGGTCAGAGCAATCTAAA
genomic: CGATGGGTGTCAAGGGTCTTACTCTTTTCCACTTGAAGAGTCATCTTCAGgtacttcatc ... atgtgatcagAAATATAGGTTAGGTAAACAATCTGATAAAGAGGGGTCAGAGCAATCTAAA
EST: gi|22473367|gb|BU037847.1|BU037847
EST:     CGATGGGTGTCAAGGGTCTTACTCTTTTCCACTTGAAGAGTCATCTTCAG                         AAATATAGGTTAGGTAAACAATCTGGTAAAGAGGGGTCAGAGCAATCTAAA
genomic: CGATGGGTGTCAAGGGTCTTACTCTTTTCCACTTGAAGAGTCATCTTCAGgtacttcatc ... atgtgatcagAAATATAGGTTAGGTAAACAATCTGATAAAGAGGGGTCAGAGCAATCTAAA
EST: gi|26558692|gb|CA830927.1|CA830927
EST:     CGATGGGTGTCAAGGGTCTTACTCTTTTCCACTTGAAGAGTCATCTTCAG                         AAATATAGGTTAGGTAAACAATCTGGTAAAGAGGGGTCAGAGCAATCTAAA
genomic: CGATGGGTGTCAAGGGTCTTACTCTTTTCCACTTGAAGAGTCATCTTCAGgtacttcatc ... atgtgatcagAAATATAGGTTAGGTAAACAATCTGATAAAGAGGGGTCAGAGCAATCTAAA
EST: gi|76918384|gb|DV167269.1|DV167269
EST:     CGATGGGTGTCAAGGGTCTTACTCTTTTCCACTTGAAGAGTCATCTTCAG                         AAATATAGGTTAGGTAAACAATCTGATAAAGAGGGGTCAGAGCAATCTAAA
genomic: CGATGGGTGTCAAGGGTCTTACTCTTTTCCACTTGAAGAGTCATCTTCAGgtacttcatc ... atgtgatcagAAATATAGGTTAGGTAAACAATCTGATAAAGAGGGGTCAGAGCAATCTAAA
EST: gi|76292002|gb|DV031570.1|DV031570
EST:     CGATGGGTGTCAAGGGTCTTACTCTTTTCCACTTGAAGAGTCATCTTCAG                         AAATATAGGTTAGGTAAACAATCTGATAAAGAGGGGTCAGAGCAATCTAAA
genomic: CGATGGGTGTCAAGGGTCTTACTCTTTTCCACTTGAAGAGTCATCTTCAGgtacttcatc ... atgtgatcagAAATATAGGTTAGGTAAACAATCTGATAAAGAGGGGTCAGAGCAATCTAAA
EST: gi|91051798|gb|EB162216.1|EB162216
EST:     CGATGGGTGTCAAGGGTCTTACTCTTTTCCACTTGAAGAGTCATCTTCAG                         AAATATAGGTTAGGTAAACAATCTGATAAAGAGGGGTCAGAGCAATCTAAA
genomic: CGATGGGTGTCAAGGGTCTTACTCTTTTCCACTTGAAGAGTCATCTTCAGgtacttcatc ... atgtgatcagAAATATAGGTTAGGTAAACAATCTGATAAAGAGGGGTCAGAGCAATCTAAA
EST: gi|74233858|gb|DT641772.1|DT641772
EST:     CGATGGGTGTCAAGGGTCTTACTCTTTTCCACTTGAAGAGTCATCTTCAG                         AAATATAGGTTAGGTAAACAATCTGATAAAGAGGGGTCAGAGCAATCTAAA
genomic: CGATGGGTGTCAAGGGTCTTACTCTTTTCCACTTGAAGAGTCATCTTCAGgtacttcatc ... atgtgatcagAAATATAGGTTAGGTAAACAATCTGATAAAGAGGGGTCAGAGCAATCTAAA
EST: gi|71436515|gb|DR817565.1|DR817565
EST:     CGATGGGTGTCAAGGGTCTTACTCTTTTCCACTTGAAGAGTCATCTTCAG                         AAATATAGGTTAGGTAAACAATCTGATAAAGAGGGGTCAGAGCAATCTAAA
genomic: CGATGGGTGTCAAGGGTCTTACTCTTTTCCACTTGAAGAGTCATCTTCAGgtacttcatc ... atgtgatcagAAATATAGGTTAGGTAAACAATCTGATAAAGAGGGGTCAGAGCAATCTAAA
EST: gi|88755721|gb|DY539862.1|DY539862
EST:     CGATGGGTGTCAAGGGTCTTACTCTTTTCCACTTGAAGAGTCATCTTCAG                         AAATATAGGTTAGGTAAACAATCTGATAAAGAGGGGTCAGAGCAATCTAAA
genomic: CGATGGGTGTCAAGGGTCTTACTCTTTTCCACTTGAAGAGTCATCTTCAGgtacttcatc ... atgtgatcagAAATATAGGTTAGGTAAACAATCTGATAAAGAGGGGTCAGAGCAATCTAAA
EST: gi|74232735|gb|DT640649.1|DT640649
EST:     CGATGGGTGTCAAGGGTCTTACTCTTTTCCACTTGAAGAGTCATCTTCAG                         AAATATAGGTTAGGTAAACAATCTGATAAAGAGGGGTCAGAGCAATCTAAA
genomic: CGATGGGTGTCAAGGGTCTTACTCTTTTCCACTTGAAGAGTCATCTTCAGgtacttcatc ... atgtgatcagAAATATAGGTTAGGTAAACAATCTGATAAAGAGGGGTCAGAGCAATCTAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgttcctcaaaagtcttaaaaacaactggttctaaatgtttctcatgtgatcagAAATATAGGTTAGGTAAACAATCTGATAAAGAGGGGTCAGAGCAATCTAAAGATG
                              ttctaaa  putative branch site (score: 2)
                                       tttctcat  putative PPT
         aaaagtcttaaaaa  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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacttcatcatgctcacatgttcctcaaaagtcttaaaaacaactggttctaaatgtttctcatgtgatcagAAATATAGGTTAGGTAAACAATCTGATAAAGAGGGGTCAGAGCAATCTAAAGATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG