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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGTCGCCTCCTCTGGCGTCGCGTCCTGCTCCCTGCGCGCCGGCGGCGACTCCCGGCGGTTTGGCCCCCGACTCGTCCTCCTGCGGAGAGGAGGCGCCGAGgtgagagttttcgtcttccccgtccctcctacctccccttgccattccattacttggtagcttcgaatcgggaggtacttgtctttgtttcgttatctgt...

Basic information

species Zea mays
transcript GRMZM2G042080_T02
intron # 1
splice site 5'
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|211285362|gb|FL347798.1|FL347798
EST:     CCCGGCGGTTTGGCCCCCGACTCGTCCTCCTGCGGAGAGGAGGCGCCGAG                         GGGGAGGGGACGAGGACACGGAATTGCCCAATATTTCGTTGTGCCAATAAG
genomic: CCCGGCGGTTTGGCCCCCGACTCGTCCTCCTGCGGAGAGGAGGCGCCGAGgtgagagttt ... ttttgatcagGGGGAGGGGACGAGGACACGGAATTGCCCAATATTTCGTTGTGCCAATAAG
EST: gi|101383237|gb|EB813674.1|EB813674
EST:     CCCGGCGGTTTGGCCCCCGACTCGTCCTCCTGCGGAGAGGAGGCGCCGAG                         GGGCGAAGGGGAACGAGG
genomic: CCCGGCGGTTTGGCCCCCGACTCGTCCTCCTGCGGAGAGGAGGCGCCGAGgtgagagttt ... ttttgatcagGGG-GA-GGGGA-CGAGG
EST: gi|211290848|gb|FL314519.1|FL314519
EST:     CCCGGCGGTTTGGCCCCCGACTCGTCCTCCTGCGGAGAGGAGGCGCCGAG                         GGGGAGGGGACGAGGACACGGAATTGCCCAATATTTCGTTGTGCCAATAAG
genomic: CCCGGCGGTTTGGCCCCCGACTCGTCCTCCTGCGGAGAGGAGGCGCCGAGgtgagagttt ... ttttgatcagGGGGAGGGGACGAGGACACGGAATTGCCCAATATTTCGTTGTGCCAATAAG
EST: gi|211241657|gb|FL328636.1|FL328636
EST:     CCCGGCGGTTTGGCCCCCGACTCGTCCTCCTGCGGAGAGGAGGCGCCGAG                         GGGGAGGGGACGAGGACACGGAATTGCCCAATATTTCGTTGTGCCAATAAG
genomic: CCCGGCGGTTTGGCCCCCGACTCGTCCTCCTGCGGAGAGGAGGCGCCGAGgtgagagttt ... ttttgatcagGGGGAGGGGACGAGGACACGGAATTGCCCAATATTTCGTTGTGCCAATAAG
EST: gi|37426350|gb|CF650926.1|CF650926
EST:     CCCGGCGGTTTGGCCCCCGACTCGTCCTCCTGCGGAGAGGAGGCGCCGAG                         GGGGAGGGGACGAGGACACGGAATTGCCCAATATTTCGTTGTGCCAATAAG
genomic: CCCGGCGGTTTGGCCCCCGACTCGTCCTCCTGCGGAGAGGAGGCGCCGAGgtgagagttt ... ttttgatcagGGGGAGGGGACGAGGACACGGAATTGCCCAATATTTCGTTGTGCCAATAAG
EST: gi|211377469|gb|FL308234.1|FL308234
EST:     CCCGGCGGTTTGGCCCCCGACTCGTCYTCCTGCGGAGAGGAGGCGCCGAG                         GGGGAGGGGACGAGGACACGGAATTGCCCAATATTTCGTTGTGCCAATAAG
genomic: CCCGGCGGTTTGGCCCCCGACTCGTCCTCCTGCGGAGAGGAGGCGCCGAGgtgagagttt ... ttttgatcagGGGGAGGGGACGAGGACACGGAATTGCCCAATATTTCGTTGTGCCAATAAG
EST: gi|76910738|gb|DV164008.1|DV164008
EST:     CCCGGCGGTTTGGCCCCCGACTCGTCCTCCTGCGGAGAGGAGGCGCCGAG                         GGGGAGGGGACGAGGACACGGAATTGCCCAATATTTCGTTGTGCCAATAAG
genomic: CCCGGCGGTTTGGCCCCCGACTCGTCCTCCTGCGGAGAGGAGGCGCCGAGgtgagagttt ... ttttgatcagGGGGAGGGGACGAGGACACGGAATTGCCCAATATTTCGTTGTGCCAATAAG
EST: gi|211276077|gb|FL337059.1|FL337059
EST:     CCCGGCGGTTTGGCCCCCGACTCGTCCTCCTGCGGAGAGGAGGCGCCGAG                         GGGGAGGGGACGAGGACACGGAATTGCCCAATATTTCGTTGTGCCAATAAG
genomic: CCCGGCGGTTTGGCCCCCGACTCGTCCTCCTGCGGAGAGGAGGCGCCGAGgtgagagttt ... ttttgatcagGGGGAGGGGACGAGGACACGGAATTGCCCAATATTTCGTTGTGCCAATAAG
EST: gi|211260647|gb|FL352281.1|FL352281
EST:     CCCGGCGGTTTGGCCCCCGACTCGTCCTCCTGCGGAGAGGAGGCGCCGAG                         GGGGAGGGGACGAGGACACGGAATTGCCCAATATTTCGTTGTGCCAATAAG
genomic: CCCGGCGGTTTGGCCCCCGACTCGTCCTCCTGCGGAGAGGAGGCGCCGAGgtgagagttt ... ttttgatcagGGGGAGGGGACGAGGACACGGAATTGCCCAATATTTCGTTGTGCCAATAAG
EST: gi|211517502|gb|FL351631.1|FL351631
EST:     CCCGGCGGTTTGGCCCCCGACTCGTCCTCCTGCGGAGAGGAGGCGCCGAG                         GGGGAGGGGACGAGGACACGGAATTGCCCAATATTTCGTTGTGCCAATAAG
genomic: CCCGGCGGTTTGGCCCCCGACTCGTCCTCCTGCGGAGAGGAGGCGCCGAGgtgagagttt ... ttttgatcagGGGGAGGGGACGAGGACACGGAATTGCCCAATATTTCGTTGTGCCAATAAG

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGTCGCCTCCTCTGGCGTCGCGTCCTGCTCCCTGCGCGCCGGCGGCGACTCCCGGCGGTTTGGCCCCCGACTCGTCCTCCTGCGGAGAGGAGGCGCCGAGgtgagagttttcgtcttccccgtccctcctacctccccttgccattccattacttggtagcttcgaatcgggaggtacttgtctttgtttcgttatctgt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccccgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cctcccc