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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggcctcagctccgccctgtggttaagctgacgcgtacctcgcccagattcagctttccccacctacactatacgtggcattgctattcctgac...

Basic information

species Zea mays
transcript GRMZM2G000718_T01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G000718_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os07g44350.1 (Oryza sativa), 5'ss of exon 2
GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgt--------cggcctcagctccgccctgtggttaagctgacgcgta---cctcgcccagattca--gctttccccacctacactatacgtggcattgctattcctgac
|||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||| |||||||| |  |||||||| |||||||||||||| ||        | |||| | | |  |  |||| |   | ||| ||  |    | ||||   |  ||  | ||     | || | | ||  ||| |               
GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAACAGGCAGTCCAAGCAGCTGGAAGATCTCACCGGGAAGATGAGGGAGTGCAAGCGgtaggtctccctgcctgcctgaacactactgtgtgctctgg-tgatgcacaggctcacgcctgaacccatggtttagtttagcttctccatctgtg-cgcca-----------

upper sequence: GRMZM2G000718_T01 (Zea mays), 5'ss of exon 2
lower sequence: EFJ08727 (Selaginella moellendorffii), 5'ss of exon 2
GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggcctcagctccgccctg--tggttaagctgacgcgtacctcgcccagattcagctttccccacctacactatacgtggcattgctattcctgac
    || ||||||||||||||||||||||||||  |   | |||||  |||||| ||||| || ||||| ||||||||| | ||||||||| |||  |||   |   |||  || |     | | ||| |     | |                                                         
ATCCGGCTTCCAGAAGATGGACAAGATCAAGGAGCCTGCCCGGCAGAGCAAGCATCTGGAAGAGCTCACCGCCAAGATGCGCGAGTGCAAGAGgtcggtctcgcctggctgtgctcgagacgctaaagtttcaatgcag--------------------------------------------------------

upper sequence: GRMZM2G000718_T01 (Zea mays), 5'ss of exon 2
lower sequence: EFJ06459 (Selaginella moellendorffii), 5'ss of exon 2
GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggcctcagctccgccctg--tggttaagctgacgcgtacctcgcccagattcagctttccccacctacactatacgtggcattgctattcctgac
    || ||||||||||||||||||||||||||  |   | |||||  |||||| |||||||| ||||| ||||||||| | ||||||||| |||  ||    |   |||  || |     | | ||| |     | |                                                         
ATCCGGCTTCCAGAAGATGGACAAGATCAAGGAGCCTGCCCGGCAGAGCAAGCATCTGGAGGAGCTCACCGCCAAGATGCGCGAGTGCAAGAGgtcggtttcgcctggctgtgctcgagacgctaaagtttcaatgcag--------------------------------------------------------

upper sequence: GRMZM2G000718_T01 (Zea mays), 5'ss of exon 2
lower sequence: EFJ18982 (Selaginella moellendorffii), 5'ss of exon 1
--GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggcctcagctccgccctgtggttaagctgacgcgtacctcgcccagattcagctttccccacctacactatacgtggcattgctattcctgac
  |  ||| ||||||||||||||||||||||||||  |   | |||||  |||||| |||||||| ||||| ||||||||  | |||||||||    | ||||| ||| |||||  ||||  | |  |||  |  |   | |    || ||||                                          
AGGTCTGGCTTCCAGAAGATGGACAAGATCAAGGAGCCTGCCCGGCAGAGCAAGCATCTGGAGGAGCTCACTGCCAAGATACGTGAGTGCAAG----AGgtcggtctc-gctccctcctg--gctgtgctagctagagacgc-taaagtttcaatgcag------------------------------------

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|211500862|gb|FL344781.1|FL344781
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGANTTTGACCGTATACTCAAGGATGAGGAGAAAAANAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|211216370|gb|FL354222.1|FL354222
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|28361821|gb|CB240177.1|CB240177
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|211142613|gb|FL363442.1|FL363442
EST:     CAGTCCAAGCAGCTGGAGCATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|211028706|gb|FL343658.1|FL343658
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|211108631|gb|FL325828.1|FL325828
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|211236842|gb|FL308499.1|FL308499
EST:     AGTTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAG
genomic: AGT-CCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAG
EST: gi|149002889|gb|EE038886.2|EE038886
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|211314061|gb|FL325145.1|FL325145
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|211049854|gb|FL341783.1|FL341783
EST:     CAGTCCAAGCAGCTGGAGGATVTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|148941490|gb|EC886419.2|EC886419
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|211276380|gb|FL349488.1|FL349488
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|21843414|gb|BQ703995.1|BQ703995
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|211224799|gb|FL342363.1|FL342363
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|211541608|gb|FL367257.1|FL367257
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|33466594|gb|CF243643.1|CF243643
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|71327359|gb|DR800293.1|DR800293
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|211440064|gb|FL316511.1|FL316511
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|211116685|gb|FL364784.1|FL364784
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|148993116|gb|EE033716.2|EE033716
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|211164059|gb|FL355972.1|FL355972
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|149112851|gb|EE295664.2|EE295664
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|149009782|gb|EE041679.2|EE041679
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|211213742|gb|FL351383.1|FL351383
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCMAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|78117925|gb|DV536312.1|DV536312
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|211067349|gb|FL342683.1|FL342683
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|211037667|gb|FL309759.1|FL309759
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|149089650|gb|EE178904.2|EE178904
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|78083753|gb|DV512146.1|DV512146
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|211285641|gb|FL366666.1|FL366666
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|211036070|gb|FL343701.1|FL343701
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGA
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGA
EST: gi|211510365|gb|FL349271.1|FL349271
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|211162036|gb|FL334323.1|FL334323
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|211100818|gb|FL317193.1|FL317193
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|211264789|gb|FL317771.1|FL317771
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|211103512|gb|FL329043.1|FL329043
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGACCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|91869534|gb|EB400432.1|EB400432
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|211125915|gb|FL330703.1|FL330703
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|30088413|gb|CB886618.1|CB886618
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|211512069|gb|FL314329.1|FL314329
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|28361634|gb|CB239990.1|CB239990
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|211262335|gb|FL317743.1|FL317743
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|211314807|gb|FL364565.1|FL364565
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|211411458|gb|FL312810.1|FL312810
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|149074291|gb|EE162669.2|EE162669
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|211529407|gb|FL360248.1|FL360248
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|50333644|gb|CO528770.1|CO528770
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|211190651|gb|FL327243.1|FL327243
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|26456321|gb|CA827904.1|CA827904
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|211477883|gb|FL341268.1|FL341268
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|20301313|gb|BQ164256.1|BQ164256
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
EST: gi|211018150|gb|FL327162.1|FL327162
EST:     CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCK                         CTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC
genomic: CAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACAC

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 4 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 370

GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACACCCCTGATGTCAACAAGCAGCTCAATGACAAGAAGCAGTTCATG


Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 110

GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACACCCCTGATGTCAACAAGCAGCTCAATGACAAGAAGCAGTTCATG


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 103

GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACACCCCTGATGTCAACAAGCAGCTCAATGACAAGAAGCAGTTCATG


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 198

GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggc ... tctcttgcagCTTGATCAAAGAGTTTGACCGTATACTCAAGGATGAGGAGAAAAAGAACACCCCTGATGTCAACAAGCAGCTCAATGACAAGAAGCAGTTCATG


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCGgtacgtcggcctcagctccgccctgtggttaagctgacgcgtacctcgcccagattcagctttccccacctacactatacgtggcattgctattcctgac

- - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctccgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cctcgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccccacc