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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCAGGCTCGGCGCGCTCGCTGCAGCGCTCAGCACATCTGGCCACCGGGGACGGCAACGCTCCGGCGCCGGCGGTGGAGGCCAGTTGCTCCTGGTCCGGGgtaagctctcggttgactttcattcgtccaattagcgcagcgttcaccctgcacaaaatccacaattttttctgtctggattcggtacaacattgttcag...

Basic information

species Zea mays
transcript GRMZM2G165945_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|149078161|gb|EE166908.2|EE166908
EST:     ACGGCAACGCTCCGGCGCCGGCGGTGGAGGCCAGTTGCTCCTGGTCCGGG                         GATGGGATAGGTAAGAGCAACGGTGGTGGGAAGAGAGATGATAGACACAGG
genomic: ACGGCAACGCTCCGGCGCCGGCGGTGGAGGCCAGTTGCTCCTGGTCCGGGgtaagctctc ... tcgtttgtagGATGGGATAGGTAAGAGCAACGGTGGTGGGAAGAGAGATGATAGACACAGG
EST: gi|78087675|gb|DV516068.1|DV516068
EST:     ACGGCAACGCTCCGGCGCCGGCGGTGGAGGCCAGTTGCTCCTGGTCCGGG                         GATGGGATAGGTAAGAGCAACGGTGGTGGGAAGAGAGATGATAGACACAGG
genomic: ACGGCAACGCTCCGGCGCCGGCGGTGGAGGCCAGTTGCTCCTGGTCCGGGgtaagctctc ... tcgtttgtagGATGGGATAGGTAAGAGCAACGGTGGTGGGAAGAGAGATGATAGACACAGG
EST: gi|211090433|gb|FL069853.1|FL069853
EST:     ACGGCAACGCTCCGGCGCCGGCGGTGGAGGCCAGTTGCTCCTGGTCCGGG                         GATGGGATAGGTAAGAGCAACGGTGGTNGGAAGAGAGATGATAGACACAGG
genomic: ACGGCAACGCTCCGGCGCCGGCGGTGGAGGCCAGTTGCTCCTGGTCCGGGgtaagctctc ... tcgtttgtagGATGGGATAGGTAAGAGCAACGGTGGTGGGAAGAGAGATGATAGACACAGG
EST: gi|211090439|gb|FL069859.1|FL069859
EST:     ACGGCAACGCTCCGGCGCCGGCGGTGGAGGCCAGTTGCTCCTGGTCCGGG                         GATGGGATAGGTWAGAGCAACGGTGGTGGGAAGAGAGATGATAGACACAGG
genomic: ACGGCAACGCTCCGGCGCCGGCGGTGGAGGCCAGTTGCTCCTGGTCCGGGgtaagctctc ... tcgtttgtagGATGGGATAGGTAAGAGCAACGGTGGTGGGAAGAGAGATGATAGACACAGG
EST: gi|71308123|gb|DR790286.1|DR790286
EST:     ACGGCAACGCTCCGGCGCCGGCGGTGGAGGCCAGTTGCTCCTGGTCCGGG                         GATGGGATAGGTAAGAGCAACGGTGGTGGGAAGAGAGATGATAGACACAGG
genomic: ACGGCAACGCTCCGGCGCCGGCGGTGGAGGCCAGTTGCTCCTGGTCCGGGgtaagctctc ... tcgtttgtagGATGGGATAGGTAAGAGCAACGGTGGTGGGAAGAGAGATGATAGACACAGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGCAGGCTCGGCGCGCTCGCTGCAGCGCTCAGCACATCTGGCCACCGGGGACGGCAACGCTCCGGCGCCGGCGGTGGAGGCCAGTTGCTCCTGGTCCGGGgtaagctctcggttgactttcattcgtccaattagcgcagcgttcaccctgcacaaaatccacaattttttctgtctggattcggtacaacattgttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG