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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaagccgacaccaccaaggccgagcgacttgctgagacggacaaggtactctagtccacgacgaacgaaattgagcttatggattccctgttcttctcagGAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGTTGAGTATTAACAGACTCGGGCGGTTCGTGTCGCTGGGCGCTCGGAGGCC

Basic information

species Zea mays
transcript GRMZM2G095141_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G095141_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os11g04210.1 (Oryza sativa), 3'ss of exon 1
gaagccgacaccaccaaggccgagcgacttgctgagacggacaaggtactctagtccacgacgaacgaaattgagcttatggattccctgttcttctcagGAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGTTGAGTATTAACAGACTCGGGCGGTTCGTGTCGCTGGGCGCTCGGAGGCC-------
    |           | |      ||  |  | |  |     ||  ||     || |      |    |     ||| |  |     |    |        || ||||||||||||||||||||||| ||||| || ||||| || |||||||||||||||||||| |   |||||   || |     ||| | ||  |       
----ctcctgttcttcatgtgttttgagattataactcaattcagtgacatatatcaagtgttcatatcaacagtcttcttcacattgtaacatctgattccagAATGTCGAGCCTCGAGGAGCCGCTCGGTCTTGGGGACCTTCCAAAGTTGAGTATTAACAGACTTGAAAGGTTC---TCTCCAAATGCTTGCAGAGCAAGTGCT

upper sequence: GRMZM2G095141_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os12g04020.1 (Oryza sativa), 3'ss of exon 1
gaagccgacaccaccaaggccgagcgacttgctgagacggacaaggtactctagtccacgacgaacgaa--attgagcttatggattccctgttcttctcagGAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGTTGAGTATTAACAGACTCGGGCGGTTCGTGTCGCTGGGCGCTCGGAGGCC-------
|   |  |   | || |  ||| |||  |   | | |     ||  ||      | ||   | |   |    || |  || |  |  ||   | |||| ||| |    |||| |||||||||||||| || ||||| || |||||||| |||||||||||||||||||| |   |||||   || |   | ||  | ||  |       
gttcctcaactcccccaccccgggcgtgtcctttatatat-taacatatcaagattcatctcaacatagttgttaaaattgta-acgcctcctgcttcacagAA----TGTCAAGCCTCGAGGAGCCACTTGGTCTTGGGGACCTGCCAAAGTTGAGTATTAACAGACTTGAAAGGTTC---TCTCCAAGTGCCTGCAGAGCAAGTGTT
















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|211335900|gb|FL358434.1|FL358434
EST:     GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAG                         GAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGT
genomic: GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGgtactgcgca ... ttcttctcagGAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGT
EST: gi|211386581|gb|FL357085.1|FL357085
EST:     GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAG                         GAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCCAAGT
genomic: GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGgtactgcgca ... ttcttctcagGAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGT
EST: gi|71301051|gb|DR786555.1|DR786555
EST:     GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAG                         GAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGT
genomic: GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGgtactgcgca ... ttcttctcagGAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGT
EST: gi|211512679|gb|FL346133.1|FL346133
EST:     GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAG                         GAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCCAAGT
genomic: GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGgtactgcgca ... ttcttctcagGAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGT
EST: gi|78075611|gb|DV504045.1|DV504045
EST:     GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAG                         GAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGT
genomic: GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGgtactgcgca ... ttcttctcagGAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGT
EST: gi|149081591|gb|EE170732.2|EE170732
EST:     GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAG                         GAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGT
genomic: GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGgtactgcgca ... ttcttctcagGAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGT
EST: gi|148941574|gb|EC886510.2|EC886510
EST:     GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAG                         GAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGT
genomic: GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGgtactgcgca ... ttcttctcagGAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGT
EST: gi|149100624|gb|EE186712.2|EE186712
EST:     GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCC--                         --AGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGT
genomic: GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGgtactgcgca ... ttcttctcagGAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGT
EST: gi|78078033|gb|DV506448.1|DV506448
EST:     GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAG                         GAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGT
genomic: GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGgtactgcgca ... ttcttctcagGAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGT
EST: gi|71447021|gb|DR828071.1|DR828071
EST:     GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAG                         GAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGT
genomic: GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGgtactgcgca ... ttcttctcagGAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGT
EST: gi|211347508|gb|FL349165.1|FL349165
EST:     GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAG                         GAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCCAAGT
genomic: GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGgtactgcgca ... ttcttctcagGAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGT
EST: gi|148951347|gb|EC897061.2|EC897061
EST:     GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAG                         GAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGT
genomic: GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGgtactgcgca ... ttcttctcagGAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGT
EST: gi|211310888|gb|FL144806.1|FL144806
EST:     GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAG                         GAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCCAAGT
genomic: GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGgtactgcgca ... ttcttctcagGAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGT
EST: gi|148959199|gb|EE010648.2|EE010648
EST:     GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAG                         GAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGT
genomic: GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGgtactgcgca ... ttcttctcagGAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGT
EST: gi|91872713|gb|EB402670.1|EB402670
EST:     GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAG                         GAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGT
genomic: GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGgtactgcgca ... ttcttctcagGAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGT
EST: gi|148951196|gb|EC896884.2|EC896884
EST:     GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAG                         GAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGT
genomic: GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGgtactgcgca ... ttcttctcagGAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGT
EST: gi|149076596|gb|EE165231.2|EE165231
EST:     GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAG                         GAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGT
genomic: GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGgtactgcgca ... ttcttctcagGAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtactctagtccacgacgaacgaaattgagcttatggattccctgttcttctcagGAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGTTGAGTATTAACAGACTCGGGCGGTTCGTGTCGCTGGGCGCTCGGAGGCC
                                      ttccctgttcttctc  CT-rich tract
                      aaattga  TA-rich tract