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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGAGCCCATTCGGGCGAGAGCGAGGTGATCAACCCATCTGAAGAAGTAGAAATGGAAGCCACCTCGCAGTCCCAGGACATAAAGCCTCGAGTTCCTGAGgtaaggtttttcacggttacagattgtcagttctgttgacttcaatcggtggtctgctgacagccaagtgtttttttttttggcattttcatttgtag

Basic information

species Zea mays
transcript GRMZM2G056166_T04
intron # 3
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|6827414|gb|AW331057.1|AW331057
EST:     AAATGGAAGCCACCTCGCAGTCCCAGGACATAAAGCCTCGAGTTCCTGAG                         GGGGTTCAAGGCCATTCAATGAAGGNTGGTACTAAATCTCAGCGACAGAGC
genomic: AAATGGAAGCCACCTCGCAGTCCCAGGACATAAAGCCTCGAGTTCCTGAGgtaaggtttt ... tcatttgtagGGGGTTCAAGGCCATTCAATGAAGGTTGGTACTAAATCTCAGCGACAGAGC
EST: gi|21987299|gb|BQ778827.1|BQ778827
EST:     AAATGGAAGCCACCTCGCAGTCCCAGGACATAAAGCCTCGAGTTCCTGAG                         GGGGTTCAAGGCCATTCAATGAAGGTTGGTACTAAATCTCAGCGACAGAGC
genomic: AAATGGAAGCCACCTCGCAGTCCCAGGACATAAAGCCTCGAGTTCCTGAGgtaaggtttt ... tcatttgtagGGGGTTCAAGGCCATTCAATGAAGGTTGGTACTAAATCTCAGCGACAGAGC
EST: gi|23199753|gb|BU582318.1|BU582318
EST:     AAATGGAAGCCACCTCGCAGTCCCAGGACATAAAGCCTCGAGTTCCTGAG                         GGGGTTCAAGGCCATTCAATGAAGGTTGGTACTAAATCTCAGCGACAGAGC
genomic: AAATGGAAGCCACCTCGCAGTCCCAGGACATAAAGCCTCGAGTTCCTGAGgtaaggtttt ... tcatttgtagGGGGTTCAAGGCCATTCAATGAAGGTTGGTACTAAATCTCAGCGACAGAGC
EST: gi|4753330|gb|AI657235.1|AI657235
EST:     AAATGGAAGCCACCTCGCAGTCCCAGGACATAAAGCCTCGAGTTCCTGAG                         GGGGTTCAAGGCCATTCAATGAAGGTTGGTACTAAATCTCAGCGACAGAGC
genomic: AAATGGAAGCCACCTCGCAGTCCCAGGACATAAAGCCTCGAGTTCCTGAGgtaaggtttt ... tcatttgtagGGGGTTCAAGGCCATTCAATGAAGGTTGGTACTAAATCTCAGCGACAGAGC
EST: gi|26558241|gb|CA830476.1|CA830476
EST:     AAATGGAAGCCACCTCGCAGTCCCAGGACATAAAGCCTCGAGTTCCTGAG                         GGGGTTCAAGGCCATTCAATGAAGGTTGGTACTAAATCTCAGCGACAGAGC
genomic: AAATGGAAGCCACCTCGCAGTCCCAGGACATAAAGCCTCGAGTTCCTGAGgtaaggtttt ... tcatttgtagGGGGTTCAAGGCCATTCAATGAAGGTTGGTACTAAATCTCAGCGACAGAGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGAGCCCATTCGGGCGAGAGCGAGGTGATCAACCCATCTGAAGAAGTAGAAATGGAAGCCACCTCGCAGTCCCAGGACATAAAGCCTCGAGTTCCTGAGgtaaggtttttcacggttacagattgtcagttctgttgacttcaatcggtggtctgctgacagccaagtgtttttttttttggcattttcatttgtag

- - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG