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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGGATAATGTGCCGACTCCAATAACTTCATTTGAGGCTGGTGGCTTCCCGTCAGAAATTCTGAAGGAGgtatgattcagtgggtgaacccacctaactcatgatctaactctaaccctaacagagtcgcatgcgaggaataaaggtcttcaaatatggcgagctaaat...

Basic information

species Zea mays
transcript GRMZM2G078826_T01
intron # 2
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|71432409|gb|DR813459.1|DR813459
EST:     CAATAACTTCATTTGAGGCTGGTGGCTTCCCGTCAGAAATTCTGAAGGAG                         ATACAACGTGCTGGATTCGCAAGCCCAACACCTATCCAAGCCCAGTCATGG
genomic: CAATAACTTCATTTGAGGCTGGTGGCTTCCCGTCAGAAATTCTGAAGGAGgtatgattca ... ctttttgtagATACAACGTGCTGGATTCGCAAGCCCAACACCTATCCAAGCCCAGTCATGG
EST: gi|211052643|gb|FL223131.1|FL223131
EST:     CAATAACTTCATTTGAGGCTGGTGGCTTCCCGTCAGAAATTCTGAAGGAG                         ATACAACGTGCTGGATTCGCAAGCCCAACACCTATC
genomic: CAATAACTTCATTTGAGGCTGGTGGCTTCCCGTCAGAAATTCTGAAGGAGgtatgattca ... ctttttgtagATACAACGTGCTGGATTCGCAAGCCCAACACCTATC
EST: gi|148937722|gb|EC881924.2|EC881924
EST:     CAATAACTTCATTTGAGGCTGGTGGCTTCCCGTCAGAAATTCTGAAGGAG                         ATACAACGTGCTGGATTCGCAAGCCCAACACCTATCCAAGCCCAGTCATGG
genomic: CAATAACTTCATTTGAGGCTGGTGGCTTCCCGTCAGAAATTCTGAAGGAGgtatgattca ... ctttttgtagATACAACGTGCTGGATTCGCAAGCCCAACACCTATCCAAGCCCAGTCATGG
EST: gi|26558502|gb|CA830737.1|CA830737
EST:     CAATAACTTCATTTGAGGCTGGTGGCTTCCCGTCAGAAATTCTGAAGGAG                         ATACAACGTGCTGGATTCGCAAGCCCAACACCTATCCAAGCCCAGTCATGG
genomic: CAATAACTTCATTTGAGGCTGGTGGCTTCCCGTCAGAAATTCTGAAGGAGgtatgattca ... ctttttgtagATACAACGTGCTGGATTCGCAAGCCCAACACCTATCCAAGCCCAGTCATGG
EST: gi|67039356|gb|CO465611.1|CO465611
EST:     CAATAACTTCATTTGAGGCTGGTGGCTTCCCGTCAGAAATTCTGAAGGAG                         ATACAACGTGCTGGATTCGCAAGCCCAACACCTATCCAAGCCCAGTCATGG
genomic: CAATAACTTCATTTGAGGCTGGTGGCTTCCCGTCAGAAATTCTGAAGGAGgtatgattca ... ctttttgtagATACAACGTGCTGGATTCGCAAGCCCAACACCTATCCAAGCCCAGTCATGG
EST: gi|211049693|gb|FL223127.1|FL223127
EST:     CAATAACTTCATTTGAGGCTGGTGGCTTCCCGTCAGAAATTCTGAAGGAG                         ATACAACGTGCTGGATTCGCAAGCCCAACACCTATCCAAGCCCAGTCATGG
genomic: CAATAACTTCATTTGAGGCTGGTGGCTTCCCGTCAGAAATTCTGAAGGAGgtatgattca ... ctttttgtagATACAACGTGCTGGATTCGCAAGCCCAACACCTATCCAAGCCCAGTCATGG
EST: gi|87157670|gb|DY402459.1|DY402459
EST:     CAATAACTTCATTTGAGGCTGGTGGCTTCCCGTCAGAAATTCTGAAGGAG                         ATACAACGTGCTGGATTCGCAAGCCCAACACCTATCCAAGCCCAGTCATGG
genomic: CAATAACTTCATTTGAGGCTGGTGGCTTCCCGTCAGAAATTCTGAAGGAGgtatgattca ... ctttttgtagATACAACGTGCTGGATTCGCAAGCCCAACACCTATCCAAGCCCAGTCATGG
EST: gi|22472616|gb|BU037096.1|BU037096
EST:     CAATAACTTCATTTGAGGCTGGTGGCTTCCCGTCAGAAATTCTGAAGGAG                         ATACAACGTGCTGGATTCGCAAGCCCAACACCTATCCAAGCCCAGTCATGG
genomic: CAATAACTTCATTTGAGGCTGGTGGCTTCCCGTCAGAAATTCTGAAGGAGgtatgattca ... ctttttgtagATACAACGTGCTGGATTCGCAAGCCCAACACCTATCCAAGCCCAGTCATGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGGGATAATGTGCCGACTCCAATAACTTCATTTGAGGCTGGTGGCTTCCCGTCAGAAATTCTGAAGGAGgtatgattcagtgggtgaacccacctaactcatgatctaactctaaccctaacagagtcgcatgcgaggaataaaggtcttcaaatatggcgagctaaat

- - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG