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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgcattatgcattctatttttcttcttttgatttaactagagtatcaagaatatttctcagctgaccatggaaaacaaaccttcaagctaatgcttttagccttttatgtgggcagGCTCTATCAAAGATCACTTCAACAGGTGCAATGACTTATTCTTTCATCCAAGCAATAGAGGTTGGAAATGCAACTACATATGGGAACATGCTAAATTCAA

Basic information

species Vitis vinifera
transcript Vv16s0013g00220.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0013g00220.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G035928_T01 (Zea mays), 3'ss of exon 3
gtaatgcattatgcattctatttttcttcttttgatttaactagagtatcaagaatatttctcagctgaccatggaaaacaaaccttcaagctaatgcttttagccttttatgtgggcagGCTCTATCAAAGATCACTTCAACAGGTGCAATGACTTATTCTTTCATCCAAGCAATAGAGGTTGGAAATGCAACTACATATGGGAACATGCTAAATTCAA
            ||| | | || ||     |||| |  | | ||  | |   |  | |   ||| |  ||  | |   | |  | ||  |   ||      | |  || | | ||  |||||| |||||||||||||||| || ||||||||||| |  |  ||||||||||| || ||   |||| | |  || || || || |  || || || || |
------------gcagtttcttgtttactatttgttcgatcaagtttgttttgg-tctgcttcaacccactgtcgttcatag-catttgattcaac-----tggaattgt-tctgatcagGCTTTATCAAAGATCACTTCGACTGGTGCAATGACATTCTGCTTCATCCAAGCTATTGAACGTGGACAGGGCACCACCTACGGTAGTATCCTGAACTCTA
















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|110391005|gb|EC955956.1|EC955956
EST:     TCATTTCCTTTAGTGGCTGTGATGATAATCAAACCTCTGCTGATACGTCG                         GCTCTATCAAAGATCACTTCAACAGGTGCAATGACTTATTCTTTCATCCAA
genomic: TCATTTCCTTTAGCGGCTGTGATGATAATCAAACCTCTGCTGATACGTCGgtaatgcatt ... atgtgggcagGCTCTATCAAAGATCACTTCAACAGGTGCAATGACTTATTCTTTCATCCAA
EST: gi|161717099|gb|FC065911.1|FC065911
EST:     TCATTTCCTTTAGTGGCTGTGATGATAATCAAACCTCTGCTGATACGTCG                         GCTCTATCAAAGATCACTTCAACAGGTGCAATGACTTATTCTTTCATCCAA
genomic: TCATTTCCTTTAGCGGCTGTGATGATAATCAAACCTCTGCTGATACGTCGgtaatgcatt ... atgtgggcagGCTCTATCAAAGATCACTTCAACAGGTGCAATGACTTATTCTTTCATCCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgaccatggaaaacaaaccttcaagctaatgcttttagccttttatgtgggcagGCTCTATCAAAGATCACTTCAACAGGTGCAATGACTTATTCTTTCATCCAAGCAATAGAGGTTGGAAATGCAACTACATATGGGAACATGCTAAATTCAA
                        agctaat  putative branch site (score: 3)
                                       ccttttat  putative PPT
          aaaacaaa  TA-rich tract