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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agaaaaaacaggacttcactctgatgccacttcctgcagattatatatgttgctctagcaaaggtaccatcttcactgacctatctcaaaacgtttgcagAATCAGATGATGATAATGACGACAACGATAGCTGGGATGCCCGGCAAACGGTGTGCAGAGCTTCAAACACGCCTGAGGAAGCTCCAGGCCCCATGGTCCC

Basic information

species Zea mays
transcript GRMZM5G848692_T02
intron # 5
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|211185311|gb|FL189477.1|FL189477
EST:     TGGAAAAGGTTGGCATGCTGCTCGTCTACTTCAACATTATAAATCTG                         AATCAGATGATGATAATGACGACAACGATAGCTGCGATGCCCGGCAAACGG
genomic: TGGAAAAGGTTGGCATGCTGCTCGTCTACTTCAGCATTATAAATCTGgtactgttaa ... acgtttgcagAATCAGATGATGATAATGACGACAACGATAGCTGGGATGCCCGGCAAACGG
EST: gi|19350960|gb|BM895492.1|BM895492
EST:     AAATGGAAAAGGTTGGCATGCTGCTCGTCTACTTCAACATTATAAATCTG                         AATCAGATGATGATAATGACGACAACGATAGCTGCGATGCCCGGCAAACGG
genomic: AAATGGAAAAGGTTGGCATGCTGCTCGTCTACTTCAGCATTATAAATCTGgtactgttaa ... acgtttgcagAATCAGATGATGATAATGACGACAACGATAGCTGGGATGCCCGGCAAACGG
EST: gi|78121799|gb|DV540183.1|DV540183
EST:     AAATGGAAAAGGTTGGCATGCTGCTCGTCTACTTCAGCATTATAAATCTG                         AATCAGATGATGATAATGACGACAACGATAGCTGGGATGCCCGGCAAACGG
genomic: AAATGGAAAAGGTTGGCATGCTGCTCGTCTACTTCAGCATTATAAATCTGgtactgttaa ... acgtttgcagAATCAGATGATGATAATGACGACAACGATAGCTGGGATGCCCGGCAAACGG
EST: gi|22491471|gb|BU051394.1|BU051394
EST:     AAATGGAAAAGGTTGGCATGCTGCTCGTCTACTTCAACATTATAAATCTG                         AATCAGATGATGATAATGACGACAACGATAGCTGCGATGCCCGGCAAACGG
genomic: AAATGGAAAAGGTTGGCATGCTGCTCGTCTACTTCAGCATTATAAATCTGgtactgttaa ... acgtttgcagAATCAGATGATGATAATGACGACAACGATAGCTGGGATGCCCGGCAAACGG
EST: gi|89106236|gb|DY576453.1|DY576453
EST:     AAATGGAAAAGGTTGGCATGCTGCTCGTCTACTTCAACATTATAAATCTG                         AATCAGATGATGATAATGACGACAACGATAGCTGCGATGCCCGGCAAACGG
genomic: AAATGGAAAAGGTTGGCATGCTGCTCGTCTACTTCAGCATTATAAATCTGgtactgttaa ... acgtttgcagAATCAGATGATGATAATGACGACAACGATAGCTGGGATGCCCGGCAAACGG
EST: gi|78119316|gb|DV537700.1|DV537700
EST:     AAATGGAAAAGGTTGGCATGCTGCTCGTCTACTTCAGCATTATAAATCTG                         AATCAGATGATGATAATGACGACAACGATAGCTGGGATGCCCGGCAAACGG
genomic: AAATGGAAAAGGTTGGCATGCTGCTCGTCTACTTCAGCATTATAAATCTGgtactgttaa ... acgtttgcagAATCAGATGATGATAATGACGACAACGATAGCTGGGATGCCCGGCAAACGG
EST: gi|74234073|gb|DT641987.1|DT641987
EST:     TGGCATGCTGCTCGTCTACTTCAGCATTATAAATCTG                         AATCAGATGATGATAATGACGACAACGATAGCTGGGATGCCCGGCAAACGG
genomic: TGGCATGCTGCTCGTCTACTTCAGCATTATAAATCTGgtactgttaa ... acgtttgcagAATCAGATGATGATAATGACGACAACGATAGCTGGGATGCCCGGCAAACGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgttgctctagcaaaggtaccatcttcactgacctatctcaaaacgtttgcagAATCAGATGATGATAATGACGACAACGATAGCTGGGATGCCCGGCAAACGGTGTGCAGAGCTTCAAACACGCCTGAGGAAGCTCCAGGCCCCATGGTCCC
                            cactgac  putative branch site (score: 2)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agaaaaaacaggacttcactctgatgccacttcctgcagattatatatgttgctctagcaaaggtaccatcttcactgacctatctcaaaacgtttgcagAATCAGATGATGATAATGACGACAACGATAGCTGGGATGCCCGGCAAACGGTGTGCAGAGCTTCAAACACGCCTGAGGAAGCTCCAGGCCCCATGGTCCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT