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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagattgaaacatctcttatgatactctcttctacatgtcattctttacatcgtcaatgatggaacatgttgcactccggatatgcagGGGTTCGATGTCCCCTGGTGGAAGAAGCTACTTGGAGGCAAACTAATAG

Basic information

species Zea mays
transcript GRMZM2G003096_T01
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|50334525|gb|CO529651.1|CO529651
EST:     CGGTGGATGTCAGATTCGATTCACCCTACTCAATGGAGGCCCGGAGTAGG                         GGGTTCGATGTCCCCTGGTGGAAGAAGCTACTTGGAGGCAAACTAATAG
genomic: CGGTGGATGTCAGATTCGATTCACCCTACTCAATGGAGGCCCGGAGTAGGgtgagattga ... ggatatgcagGGGTTCGATGTCCCCTGGTGGAAGAAGCTACTTGGAGGCAAACTAATAG
EST: gi|89249663|gb|DY621449.1|DY621449
EST:     CGGTGGATGTCAGATTCGATTCACCCTACTCAATGGAGGCCCGGAGTAGG                         GGGTTCGATGTCCCCTGGTGGAAGAAGCTACTTGGAGGCAAACTAATAG
genomic: CGGTGGATGTCAGATTCGATTCACCCTACTCAATGGAGGCCCGGAGTAGGgtgagattga ... ggatatgcagGGGTTCGATGTCCCCTGGTGGAAGAAGCTACTTGGAGGCAAACTAATAG
EST: gi|16378003|gb|BI992233.1|BI992233
EST:     CGGTGGATGTCAGATTCGATTCACCCTACTCAATGGAGGCCCGGAGTAGG                         GGGTTCGATGTCCCCTGGTGGAAGAAGCTACTTGGAGGCAAACTAATAG
genomic: CGGTGGATGTCAGATTCGATTCACCCTACTCAATGGAGGCCCGGAGTAGGgtgagattga ... ggatatgcagGGGTTCGATGTCCCCTGGTGGAAGAAGCTACTTGGAGGCAAACTAATAG
EST: gi|211439722|gb|FL188860.1|FL188860
EST:     CGGTGGATGTCAGATTCGATTCACCCTACTCAATGGAGGCCCGGAGTAGG                         GGTTTCGATGTCCCCTGGTGGAAGAAGCTACTTGGAGGCCAACTAATAGGC
genomic: CGGTGGATGTCAGATTCGATTCACCCTACTCAATGGAGGCCCGGAGTAGGgtgagattga ... ggatatgcagGGGTTCGATGTCCCCTGGTGGAAGAAGCTACTTGGAGGCAAACTAATAGGC
EST: gi|211152123|gb|FL081697.1|FL081697
EST:     CGGTGGATGTCAGATTCGATTCACCCTACTCAATGGAGGCCCGGAGTAGG                         GGGTTCGATGTCCCCTGGTGGAAGAAGCTACTTGGAGGCAAACTAATAG
genomic: CGGTGGATGTCAGATTCGATTCACCCTACTCAATGGAGGCCCGGAGTAGGgtgagattga ... ggatatgcagGGGTTCGATGTCCCCTGGTGGAAGAAGCTACTTGGAGGCAAACTAATAG
EST: gi|211322726|gb|FL462750.1|FL462750
EST:     CGGTGGATGTCAGATTCGATTCACCCTACTCAATGGAGGCCCGGAGTAGG                         GGTTTCGATGTCCCCTGGTGGAAGAAGCTACTTGGAGGCAAACTAATAG
genomic: CGGTGGATGTCAGATTCGATTCACCCTACTCAATGGAGGCCCGGAGTAGGgtgagattga ... ggatatgcagGGGTTCGATGTCCCCTGGTGGAAGAAGCTACTTGGAGGCAAACTAATAG
EST: gi|211439720|gb|FL188858.1|FL188858
EST:     CGGTGGATGTCAGATTCGATTCACCCTACTCAATGGAGGCCCGGAGTAGG                         GGTTTCGATGTCCCCTGGTGGAAGAAGCTACTTGGAGGCAAACTAATAG
genomic: CGGTGGATGTCAGATTCGATTCACCCTACTCAATGGAGGCCCGGAGTAGGgtgagattga ... ggatatgcagGGGTTCGATGTCCCCTGGTGGAAGAAGCTACTTGGAGGCAAACTAATAG
EST: gi|211537751|gb|FL446842.1|FL446842
EST:     CGGTGGATGTCAGATTCGATTCACCCTACTCAATGGAGGCCCGGAGTAGG                         GGTTTCGATGTCCCCTGGTGGAAGAAGCTACTTGGAGGCAAACTAATAG
genomic: CGGTGGATGTCAGATTCGATTCACCCTACTCAATGGAGGCCCGGAGTAGGgtgagattga ... ggatatgcagGGGTTCGATGTCCCCTGGTGGAAGAAGCTACTTGGAGGCAAACTAATAG
EST: gi|211439718|gb|FL188856.1|FL188856
EST:     CGGTGGATGTCAGATTCGATTCACCCTACTCAATGGAGGCCCGGAGTAGG                         GGTTTCGATGTCCCCTGGTGGAAGAAGCTACTTGGAGGCAAACTAATAGGC
genomic: CGGTGGATGTCAGATTCGATTCACCCTACTCAATGGAGGCCCGGAGTAGGgtgagattga ... ggatatgcagGGGTTCGATGTCCCCTGGTGGAAGAAGCTACTTGGAGGCAAACTAATAGGC
EST: gi|76281783|gb|DV021351.1|DV021351
EST:     CGGTGGATGTCAGATTCGATTCCCCCTACTCAATGGAGGCCCGGAGTAGG                         GGGTTCGATGTCCCCTGGTGGAAGAAGCTACTTGGAGGCAAACTAATAG
genomic: CGGTGGATGTCAGATTCGATTCACCCTACTCAATGGAGGCCCGGAGTAGGgtgagattga ... ggatatgcagGGGTTCGATGTCCCCTGGTGGAAGAAGCTACTTGGAGGCAAACTAATAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acatgtcattctttacatcgtcaatgatggaacatgttgcactccggatatgcagGGGTTCGATGTCCCCTGGTGGAAGAAGCTACTTGGAGGCAAACTAATAG
       attcttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagattgaaacatctcttatgatactctcttctacatgtcattctttacatcgtcaatgatggaacatgttgcactccggatatgcagGGGTTCGATGTCCCCTGGTGGAAGAAGCTACTTGGAGGCAAACTAATAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG