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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACTCGTGGCCGCCGGAGATGGACGGCGCGCCGCGGGCCGGCAGGACCTCCTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgcatctcagaaaccagaactcttgattctgttcgctgcccgaatcatgcttgactgaaacttgttttctgcag

Basic information

species Zea mays
transcript GRMZM2G098594_T05
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G098594_T05 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os06g02560.2 (Oryza sativa), 5'ss of exon 3
GACTCGTGGCCGCCGGAGATGGACGGCGCGCCGCGGGCCGGCAGGACCTCCTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgcatctcagaaaccagaactcttgat--tctgttcgctgcccgaatcatgcttgactgaaacttgttttctgcag--------
      | |  | |||||||||| |  | |    || ||  |  ||||||||||||       || ||||||||||| ||||||||||||||||||||||||| |   | | || |    |      |||||   ||  ||| |   |       |     | |  |     ||||||            
------TCGTGGTCGGAGATGGATGAGGAGA---GGTCCAACCAGACCTCCTTCTCG------ACAACCCAGCTCTCGATCTCCATCCCGATGCCCAGATGTGGGTCCCCTATCGgtccgcgtctaccttgagcatcccttcaccaacatttctctcacacaattcattccattttctttgatgatgcag

upper sequence: GRMZM2G098594_T05 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os06g02560.3 (Oryza sativa), 5'ss of exon 3
------------GACTCGTGGCCGCCGGAGATGGACGGCGCGCCGCGGGCCGGCAGGACCTCCTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgcatctcagaaaccagaactcttgat--tctgttcgctgcccgaatcatgcttgactgaaacttgttttctgcag--------
            ||||||||| ||   |||||||| |  | |    || ||  |  ||||||||||||       || ||||||||||| ||||||||||||||||||||||||| |   | | || |    |      |||||   ||  ||| |   |       |     | |  |     ||||||            
CCTGGGAGGCGAGACTCGTGGTCG---GAGATGGATGAGGAGA---GGTCCAACCAGACCTCCTTCTCG------ACAACCCAGCTCTCGATCTCCATCCCGATGCCCAGATgtgggtcccctatcggtccgcgtctaccttgagcatcccttcaccaacatttctctcacacaattcattccattttctttgatgatgcag
















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|71756468|gb|DR954405.1|DR954405
EST:     CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGAT                         GCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
genomic: CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgca ... ttttctgcagGCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
EST: gi|211049284|gb|FL434224.1|FL434224
EST:     CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGAT                         GCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
genomic: CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgca ... ttttctgcagGCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
EST: gi|76909553|gb|DV163419.1|DV163419
EST:     CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGAT                         GCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
genomic: CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgca ... ttttctgcagGCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
EST: gi|5055513|gb|AI734400.1|AI734400
EST:     CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGAT                         GCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
genomic: CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgca ... ttttctgcagGCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
EST: gi|4966418|gb|AI691274.1|AI691274
EST:     CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGAT                         GCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGNGGACGCTCA
genomic: CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgca ... ttttctgcagGCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
EST: gi|91052102|gb|EB162520.1|EB162520
EST:     CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGAT                         GCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
genomic: CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgca ... ttttctgcagGCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
EST: gi|78023429|gb|DV491816.1|DV491816
EST:     CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGAT                         GCGACTGACGAGGAACCGTCGATCGGGCGGCGGCTAAACGGTGGACGCTCA
genomic: CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgca ... ttttctgcagGCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
EST: gi|86468203|gb|DY234573.1|DY234573
EST:     CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGAT                         GCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
genomic: CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgca ... ttttctgcagGCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
EST: gi|71446187|gb|DR827237.1|DR827237
EST:     CTTCTCTTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGAT                         GCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
genomic: CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgca ... ttttctgcagGCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
EST: gi|94474110|gb|EB703068.1|EB703068
EST:     CTTTTCTTCTTCCACCACCCAGCTCTCCATTTCCATCCCGATGCCCAGAT                         GCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
genomic: CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgca ... ttttctgcagGCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
EST: gi|78123063|gb|DV541447.1|DV541447
EST:     CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGAT                         GCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
genomic: CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgca ... ttttctgcagGCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
EST: gi|50334622|gb|CO529748.1|CO529748
EST:     CTTTTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGAT                         GCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
genomic: CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgca ... ttttctgcagGCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
EST: gi|211495950|gb|FL480149.1|FL480149
EST:     CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGAT                         GCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGNMGCTCA
genomic: CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgca ... ttttctgcagGCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
EST: gi|211181656|gb|FL124485.1|FL124485
EST:     CTTCTCCTCCTCCACCACCCAGCTCTCCATCTSCATCCCGATGCCCAKAT                         GCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
genomic: CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgca ... ttttctgcagGCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
EST: gi|78074969|gb|DV503403.1|DV503403
EST:     CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGAT                         GCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
genomic: CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgca ... ttttctgcagGCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
EST: gi|76287041|gb|DV026609.1|DV026609
EST:     CTTTTCCTCCTCCACCACCCAGCTCTCCATTTCCATCCCGATGCCCAGAT                         GCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
genomic: CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgca ... ttttctgcagGCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
EST: gi|93282387|gb|EB674651.1|EB674651
EST:     CTTTTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGAT                         GCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
genomic: CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgca ... ttttctgcagGCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
EST: gi|78078042|gb|DV506457.1|DV506457
EST:     TTTTTCTTCTTCCACCACCCAGCTCTCCATTTCCATCCCGATGCCCAGAT                         GCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
genomic: CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgca ... ttttctgcagGCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
EST: gi|101398200|gb|EB820973.1|EB820973
EST:     CTTTTCTTCTTCCACCACCCAGCTCTCCATTTCCATCCCGATGCCCAGAT                         GCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
genomic: CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgca ... ttttctgcagGCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
EST: gi|91869606|gb|EB400460.1|EB400460
EST:     CTTTTCTTCTTCCCCCACCCAGCTCTCCATTTCCATCCCGATGCCCAGAT                         GCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
genomic: CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgca ... ttttctgcagGCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
EST: gi|78078043|gb|DV506458.1|DV506458
EST:     CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGAT                         GCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
genomic: CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgca ... ttttctgcagGCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
EST: gi|78122189|gb|DV540573.1|DV540573
EST:     CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGAT                         GCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
genomic: CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgca ... ttttctgcagGCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
EST: gi|76909555|gb|DV163420.1|DV163420
EST:     CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGAT                         GCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
genomic: CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgca ... ttttctgcagGCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
EST: gi|50327617|gb|CO522743.1|CO522743
EST:     CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGAT                         GCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
genomic: CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgca ... ttttctgcagGCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
EST: gi|86466440|gb|DY232810.1|DY232810
EST:     CTTCTCCTCCTCCACCACCCAGCTCTCCATTTCCATCCCGATGCCCAGAT                         GCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
genomic: CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgca ... ttttctgcagGCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
EST: gi|91055144|gb|EB165562.1|EB165562
EST:     CTTTTCTTCCTCCACCACCCAGCTCTCCATTTCCATCCCGATGCCCAGAT                         GCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
genomic: CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgca ... ttttctgcagGCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
EST: gi|88747572|gb|DY531713.1|DY531713
EST:     CTTTTCTTCTTCCACCACCCAGCTCTCCATTTCCATCCCGATGCCCAGAT                         GCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
genomic: CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgca ... ttttctgcagGCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
EST: gi|71318396|gb|DR795964.1|DR795964
EST:     CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGAT                         GCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
genomic: CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgca ... ttttctgcagGCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
EST: gi|78089511|gb|DV517885.1|DV517885
EST:     CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGAT                         GCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
genomic: CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgca ... ttttctgcagGCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
EST: gi|71301570|gb|DR786838.1|DR786838
EST:     CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGAT                         GCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
genomic: CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgca ... ttttctgcagGCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
EST: gi|76915513|gb|DV166014.1|DV166014
EST:     CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGAT                         GCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA
genomic: CTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgca ... ttttctgcagGCGACTGACGAGGAACCGTCGATCGGGCGGCCACTAGACGGTGGACGCTCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GACTCGTGGCCGCCGGAGATGGACGGCGCGCCGCGGGCCGGCAGGACCTCCTTCTCCTCCTCCACCACCCAGCTCTCCATCTCCATCCCGATGCCCAGATgtgagctgcatctcagaaaccagaactcttgattctgttcgctgcccgaatcatgcttgactgaaacttgttttctgcag

- - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC