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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattcagccattcttcgttttgtgaagcatagcatgattaggccctgactgaatgcaatcttgccttgctgatggtgcagCGCTCAAGGACTGGGAACAGCAGCACTGGCGGCCAAGGAACCTGAAGCGCTCCCTTTCTGCGCCATCGCTTATAGTTTCACGGGGATTTTCGGCACGCTG

Basic information

species Zea mays
transcript GRMZM5G873519_T02
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G873519_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os01g32830.1 (Oryza sativa), 3'ss of exon 4
--------gtaattcagccattcttcgttttgtgaagcatagcatgattaggccc---tgactgaatgc------aatcttgcct-tgctgatggtgcagCGCTCAAGGACTGGGAACAGCAGCACTGGCGGCCAAGGAACCTGAAGCGCTCCCTTTCTGCGCCATCGCTTATAGTTTCACGGGGATTTTCGGCACGCTG
         |  |     | || ||   |  || ||||     ||   ||    |      | | ||||      |||  ||  |    | | | ||||| ||||| ||||||||||||||||| ||| |||||||||| ||||||||||| || |||||||||||||||||  |  | |||||||| |||||  |||| 
ttacctacctgctggctgctttttttagtaagttaagctgcatatatatacatacatacagcagtatgctctatgaataatgtttgcatttacgttgcagTGCTCATGGACTGGGAACAGCAGCGCTGTCGGCCAAGGAGCCTGAAGCGCTGCCCTTCTGCGCCATCGCTTACGGCCTGACGGGGATCTTCGGTTCGCTC

upper sequence: GRMZM5G873519_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os10g42780.6 (Oryza sativa), 3'ss of exon 6
----------------gtaattcagccattcttcgtt--ttgtgaagcatagcatgattaggccctgactga-atgcaatcttgccttgctgatggtgcagCGCTCAAGGACTGGGAACAGCAGCACTGGCGGCCAAGGAACCTGAAGCGCTCCCTTTCTGCGCCATCGCTTATAGTTTCACGGGGATTTTCGGCACGCTG
                | ||   ||  |  |   |      || |   |||  || |   ||   ||   |   ||||||||   |          ||||| || || ||||||||||| |||||  || | |||||||| ||||||||| | || |||||||||||||| ||     | |||||| |  ||| | || | 
aaatgtcttgtaacatgaaacagagggaaacggagggagcagtaattgataa-ataagagggtgatgttaggcgtgcaatctgatccatacatacatgcagTGCCCATGGACTGGGAACGGCAGCGGTGTCAGCCAAGGAGCCTGAAGCGTTGCCCTTCTGCGCCATCGCCTACGCCCTAACGGGGGTCGTCGCCTCGTTA
















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|76285584|gb|DV025152.1|DV025152
EST:     AAACTTGGTCTGAACGACCCCATCTCCAGAGGAGTAGGGACAGCTTCCAG                         CGCTCAAGGACTGGGAACAGCAGCACTGGCGGCCAAGGAACCTGAAGCGCT
genomic: AAACTTGGTCTGAACGACCCCATCTCCAGAGGAGTAGGGACAGCTTCCAGgtaattcagc ... gatggtgcagCGCTCAAGGACTGGGAACAGCAGCACTGGCGGCCAAGGAACCTGAAGCGCT
EST: gi|211249853|gb|FL405315.1|FL405315
EST:     AAACTTGGTCTGAACGACCCCATCTCCAGAGGAGTAGGGACAGCTTCCAG                         CGCTCAAGGACTGGGAACAGCAGCACTGGCGGCCAAGGAACCTGAAGCGCT
genomic: AAACTTGGTCTGAACGACCCCATCTCCAGAGGAGTAGGGACAGCTTCCAGgtaattcagc ... gatggtgcagCGCTCAAGGACTGGGAACAGCAGCACTGGCGGCCAAGGAACCTGAAGCGCT
EST: gi|74234748|gb|DT642662.1|DT642662
EST:     AAACTTGGTCTGAACGACCCCATCTCCAGAGGAGTAGGGACAGCTTCCAG                         CGCTCAAGGACTGGGAACAGCAGCACTGGCGGCCAAGGAACCTGAAGCGCT
genomic: AAACTTGGTCTGAACGACCCCATCTCCAGAGGAGTAGGGACAGCTTCCAGgtaattcagc ... gatggtgcagCGCTCAAGGACTGGGAACAGCAGCACTGGCGGCCAAGGAACCTGAAGCGCT
EST: gi|32844015|gb|CD983696.1|CD983696
EST:     AAACTTGGTCTGAACGACCCCATCTCCAGAGGAGTAGGGACAGCTTCCAG                         CGCTCAAGGACTGGGAACAGCAGCACTGGCGGCCAAGGAACCTGAAGCGCT
genomic: AAACTTGGTCTGAACGACCCCATCTCCAGAGGAGTAGGGACAGCTTCCAGgtaattcagc ... gatggtgcagCGCTCAAGGACTGGGAACAGCAGCACTGGCGGCCAAGGAACCTGAAGCGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agcatagcatgattaggccctgactgaatgcaatcttgccttgctgatggtgcagCGCTCAAGGACTGGGAACAGCAGCACTGGCGGCCAAGGAACCTGAAGCGCTCCCTTTCTGCGCCATCGCTTATAGTTTCACGGGGATTTTCGGCACGCTG
                                         tgctgat  putative branch site (score: 3)
        atgatta  TA-rich tract