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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aacacttgttgttatgtgaagattactttgtgtactcctttcaaataatataattcatatagtctcatgatatgatgatatcaacatcttctggttgcagGTTTTGGCTTTTTTGTGGATGAGGCTGGACAAGTTAAGAAGAAACCACAG

Basic information

species Zea mays
transcript GRMZM5G803610_T02
intron # 4
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|78107382|gb|DV525800.1|DV525800
EST:     AGTGGGTGAGTTCTGTATTATCCACAATGGATCCTCCATTGGTCAAGATG                         GTTTTGGCTTTTTTGTGGATGAGGCTGGACAAGTTAAGAAGAAACCACAG
genomic: AGTGGGTGAGTTCTGTATTATCCACAATGGATCCTCCATTGGTCAAGATGgtgagcatat ... ctggttgcagGTTTTGGCTTTTTTGTGGATGAGGCTGGACAAGTTAAGAAGAAACCACAG
EST: gi|78107381|gb|DV525799.1|DV525799
EST:     AGTGGGTGAGTTCTGTATTATCCACAATGGATCCTCCATTGGTCAAGATG                         GTTTTGGCTTTTTTGTGGATGAGGCTGGACAAGTTAAGAAGAAACCACAG
genomic: AGTGGGTGAGTTCTGTATTATCCACAATGGATCCTCCATTGGTCAAGATGgtgagcatat ... ctggttgcagGTTTTGGCTTTTTTGTGGATGAGGCTGGACAAGTTAAGAAGAAACCACAG
EST: gi|74232550|gb|DT640464.1|DT640464
EST:     AGTGGGTGAGTTCTGTATTATCCACAATGGATCCTCCATTGGTCAAGATG                         GTTTTGGCTTTTTTGTGGATGAGGCTGGACAAGTTAAGAAGAAACCACAG
genomic: AGTGGGTGAGTTCTGTATTATCCACAATGGATCCTCCATTGGTCAAGATGgtgagcatat ... ctggttgcagGTTTTGGCTTTTTTGTGGATGAGGCTGGACAAGTTAAGAAGAAACCACAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taatataattcatatagtctcatgatatgatgatatcaacatcttctggttgcagGTTTTGGCTTTTTTGTGGATGAGGCTGGACAAGTTAAGAAGAAACCACAG
                                       catcttct  CT-rich tract
     taattcatata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aacacttgttgttatgtgaagattactttgtgtactcctttcaaataatataattcatatagtctcatgatatgatgatatcaacatcttctggttgcagGTTTTGGCTTTTTTGTGGATGAGGCTGGACAAGTTAAGAAGAAACCACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA