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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaggcagcaaatacatgtcttcagtttttttttggagggggggggggggaccactgttttagtacaacctgttgatcattcatccacatgacactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTACCAAATGCAATGAACGCTGCTGAGATCACCGATAAGCTTGGTCTCCATT

Basic information

species Zea mays
transcript GRMZM2G015361_T01
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|211062868|gb|FL040893.1|FL040893
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAG                         GATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
EST: gi|211059916|gb|FL040880.1|FL040880
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAG                         GATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCA
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCA
EST: gi|211062863|gb|FL040888.1|FL040888
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAG                         GATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
EST: gi|211059912|gb|FL040876.1|FL040876
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAG                         GATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
EST: gi|5706146|gb|AI941922.1|AI941922
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCNCAGGATGCTGAACGAG                         GATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
EST: gi|211056905|gb|FL040858.1|FL040858
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAG                         GATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
EST: gi|211062865|gb|FL040890.1|FL040890
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAG                         GATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
EST: gi|32942546|gb|CF047365.1|CF047365
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAG                         GATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCGAACAAGCAAGATCTA
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
EST: gi|47962387|gb|CN845096.1|CN845096
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAG                         GATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
EST: gi|31250280|gb|CD219304.1|CD219304
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAG                         GATGAATTGAGGGAGGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
EST: gi|32869236|gb|CF008918.1|CF008918
EST:     AGGATGCTGAACGAG                         GATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCGAACAAGCAAGATCTA
genomic: AGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
EST: gi|5567066|gb|AI881977.1|AI881977
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAG                         GATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
EST: gi|211059905|gb|FL040869.1|FL040869
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAG                         GATGAATTGAGGGATGCTGTC
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTC
EST: gi|32940814|gb|CF045633.1|CF045633
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAG                         GATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCGAACAAGCAAGATCTA
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
EST: gi|211062864|gb|FL040889.1|FL040889
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAG                         GATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
EST: gi|211062869|gb|FL040894.1|FL040894
EST:     GATCGTGTTGTTGAAGCMAAAG-ATGAAGCTCCACAGGATGCTGAACGAG                         GATGAATTGAGGGATGC
genomic: GATCGTGTTGTTGAAGC-AAAGGATGA-GCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGC
EST: gi|211059909|gb|FL040873.1|FL040873
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAG                         GATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
EST: gi|211059911|gb|FL040875.1|FL040875
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAG                         GATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
EST: gi|9255410|gb|BE345878.1|BE345878
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAG                         GATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
EST: gi|211056913|gb|FL040866.1|FL040866
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAG                         GATGAATTGAGGGATGCTGTCYTGCTCGTTTTCGCAAACAAGCAAG
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAG
EST: gi|32941125|gb|CF045944.1|CF045944
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAG                         GATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCGAACAAGCAAGATCTA
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
EST: gi|32851462|gb|CD991143.1|CD991143
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAG                         GATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCGAACAAGCAAGATCTA
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
EST: gi|51592624|gb|CV071770.1|CV071770
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAG                         GATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
EST: gi|211056910|gb|FL040863.1|FL040863
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAG                         GATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
EST: gi|211056908|gb|FL040861.1|FL040861
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAG                         GATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGC
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGC
EST: gi|9255278|gb|BE345746.1|BE345746
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAG                         GATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
EST: gi|211059908|gb|FL040872.1|FL040872
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAG                         GATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTT
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCT-
EST: gi|211056915|gb|FL040868.1|FL040868
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAG                         GATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
EST: gi|32862562|gb|CF002244.1|CF002244
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAG                         GATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCGAACAAGCAAGATCTA
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
EST: gi|211062861|gb|FL040886.1|FL040886
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAG                         GATGAATTGAGGGATGCTGTCTTGCTTGTTTTCGCGAACAAGCAAGATCTA
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
EST: gi|32849424|gb|CD989105.1|CD989105
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAG                         GATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCGAACAAGCAAGATCTA
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
EST: gi|211062859|gb|FL040884.1|FL040884
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAG                         GATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
EST: gi|211056911|gb|FL040864.1|FL040864
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAG                         GATGAATTNAGGGATGCTGTCTTGCTCGTTTTCGC
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGC
EST: gi|211056907|gb|FL040860.1|FL040860
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAG                         GATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
EST: gi|33103129|gb|CF063089.1|CF063089
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAG                         GATGAATTGAGGGATGCTGTCTTGCT
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCT
EST: gi|32909052|gb|CF013864.1|CF013864
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAG                         GATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCGAACAAGCAAGATCTA
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTA
EST: gi|211062867|gb|FL040892.1|FL040892
EST:     GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAG                         GATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAAC
genomic: GAGATCGTGTTGTTGAAGCAAAGGATGAGCTCCACAGGATGCTGAACGAGgtatatcaac ... acactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggggaccactgttttagtacaacctgttgatcattcatccacatgacactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTACCAAATGCAATGAACGCTGCTGAGATCACCGATAAGCTTGGTCTCCATT
                        tgttgat  putative branch site (score: 4)
           ttttagta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaggcagcaaatacatgtcttcagtttttttttggagggggggggggggaccactgttttagtacaacctgttgatcattcatccacatgacactggcagGATGAATTGAGGGATGCTGTCTTGCTCGTTTTCGCAAACAAGCAAGATCTACCAAATGCAATGAACGCTGCTGAGATCACCGATAAGCTTGGTCTCCATT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA