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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtccgttcgtcccaccctcgtcgctcgagttagagatttattattatatcaatcggttgtgaaacagataaatctaacgctcacttcgcgatctctactagTTTCTTTCGGTGCTTCGTGCCACAAGTGGAGGAAGGTTCCGGCATGGCGACTCCACTGTGTTGCTGAAGACGAAG

Basic information

species Zea mays
transcript GRMZM5G819212_T01
intron # 1
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|211094336|gb|FL133038.1|FL133038
EST:     CTCCTCCCTCGTGCCTGTTTCGGCTGCGCGGCCTCTCTCCGGAAGCACAG                         TTTCTTTCGGTGCTTCGTGCCACAAGTGGAGGAAGGTTCCGGCATGGCGAC
genomic: CTCCTCCCTCGTGCCTGTTTCGGCTGCGCGGCCTCTCTCCGGAAGCACAGgtgagtccgt ... tctctactagTTTCTTTCGGTGCTTCGTGCCACAAGTGGAGGAAGGTTCCGGCATGGCGAC
EST: gi|87156647|gb|DY401436.1|DY401436
EST:     CGCGGCCTCTCTCCGGAAGCACAG                         TTTCTTTCGGTGCTTCGTGCCACAAGTGGAGGAAGGTTCCGGCATGGCGAC
genomic: CGCGGCCTCTCTCCGGAAGCACAGgtgagtccgt ... tctctactagTTTCTTTCGGTGCTTCGTGCCACAAGTGGAGGAAGGTTCCGGCATGGCGAC
EST: gi|22521085|gb|BU079896.1|BU079896
EST:     TCCTCCCTCGTGACCTGTTTCGGCTGCGCGGCCTCTCTCCGGAAGCACAG                         TTTCTTTCGGTGCTTCGTGCCACAAGTGGAGGAAGGTTCCGGCATGGCGAC
genomic: TCCTCCCTCGTG-CCTGTTTCGGCTGCGCGGCCTCTCTCCGGAAGCACAGgtgagtccgt ... tctctactagTTTCTTTCGGTGCTTCGTGCCACAAGTGGAGGAAGGTTCCGGCATGGCGAC
EST: gi|26557890|gb|CA830125.1|CA830125
EST:     CTCCTCCCTCGTGCCTGTTTCGGCTGCGCGGCCTCTCTCCGGAAGCACAG                         TTTCTTTCGGTGCTTCGTGCCACAAGTGGAGGAAGGTTCCGGCATGGCGAC
genomic: CTCCTCCCTCGTGCCTGTTTCGGCTGCGCGGCCTCTCTCCGGAAGCACAGgtgagtccgt ... tctctactagTTTCTTTCGGTGCTTCGTGCCACAAGTGGAGGAAGGTTCCGGCATGGCGAC
EST: gi|21809855|gb|BQ668173.1|BQ668173
EST:     CTCCTCCCTCG-GCCTGTTTCGGCTGCGCGGCCTCTCTCCGGAAGCACAG                         TTTCTTTCGNG-GCTTCGTGCCACAAGTGGAGGAAGGTTCCGGCATGGCGA
genomic: CTCCTCCCTCGTGCCTGTTTCGGCTGCGCGGCCTCTCTCCGGAAGCACAGgtgagtccgt ... tctctactagTTTCTTTCG-GTGCTTCGTGCCACAAGTGGAGGAAGGTTCCGGCATGGCGA
EST: gi|21331586|gb|BQ486967.1|BQ486967
EST:     CTCCTCCCTCGTGCCTGTTTCGGCTGCGCGGCCTCTCTCCGGAAGCACAG                         TTTCTTTCGGTGCTTCGTGCCACAAGTGGAGGAAGGTTCCGGCATGGCGAC
genomic: CTCCTCCCTCGTGCCTGTTTCGGCTGCGCGGCCTCTCTCCGGAAGCACAGgtgagtccgt ... tctctactagTTTCTTTCGGTGCTTCGTGCCACAAGTGGAGGAAGGTTCCGGCATGGCGAC
EST: gi|87156978|gb|DY401767.1|DY401767
EST:     CTCCTCCCTCGTGCCTGTTTCGGCTGCGCGGCCTCTCTCCAGAAGCACAG                         TTTCTTTCTGTGCTTCGTGCCACAAGTGGAGGAAGGTTCCGGCATGGCGAC
genomic: CTCCTCCCTCGTGCCTGTTTCGGCTGCGCGGCCTCTCTCCGGAAGCACAGgtgagtccgt ... tctctactagTTTCTTTCGGTGCTTCGTGCCACAAGTGGAGGAAGGTTCCGGCATGGCGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatcaatcggttgtgaaacagataaatctaacgctcacttcgcgatctctactagTTTCTTTCGGTGCTTCGTGCCACAAGTGGAGGAAGGTTCCGGCATGGCGACTCCACTGTGTTGCTGAAGACGAAG
                                             tctctact  CT-rich tract
                     ataaatctaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtccgttcgtcccaccctcgtcgctcgagttagagatttattattatatcaatcggttgtgaaacagataaatctaacgctcacttcgcgatctctactagTTTCTTTCGGTGCTTCGTGCCACAAGTGGAGGAAGGTTCCGGCATGGCGACTCCACTGTGTTGCTGAAGACGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA