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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtccttgtgacctctattttgctaacctgtatcttcatttttctgaccttttgactcttaccagTTGCACCAATGGAATGGGGGTCCACCTAATATGTATGATATCAGTGGAAGTGCACACTTCATAAATAAATGTGACAATGGAATTGTTATTCATCGTAATC

Basic information

species Vitis vinifera
transcript Vv10s0003g05490.t01
intron # 18
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv10s0003g05490.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: LOC_Os06g45980.1 (Oryza sativa), 3'ss of exon 18
--------gtttgtccttgtgacctct--attttgctaac----ctgtat-cttcatttttctgaccttttg--act--cttaccagTTGCACCAATGGAATGGGGGTCCACCTAATATGTATGATATCAGTGGAAGTGCACACTTCATAAATAAATGTGACAATGGAATTGTTATTCATCGTAATC
         ||   | | ||  | | |  || ||  ||||     || || |   |||   || || |  ||  |||   || | || | ||  | |||||||| ||||| |||||||||||||| ||||||||||| ||||| |||||||| |||||||| ||||||||||| || ||||| ||  
gtaagaagattgaacatagttgcatattaatctttgtaacattattgaatacacaattagccttacatgctgttactgctttgctagCTTCATAACTGGAATGGTGGTCCTCCTAATATGTATGACATCAGTGGAAGCGCACATTTCATAAACAAATGTGATAATGGAATTGTCATCCATCGAAACA

upper sequence: Vv10s0003g05490.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GRMZM2G164835_T01 (Zea mays), 3'ss of exon 18
------gtttgtccttgtgacctctattttgctaacctgtatcttcatttttctgaccttttgactcttaccagTTGCACCAATGGAATGGGGGTCCACCTAATATGTATGATATCAGTGGAAGTGCACACTTCATAAATAAATGTGACAATGGAATTGTTATTCATCGTAATC
        |||| | ||  || ||  | |||  ||| |  |      | || ||     ||    | ||||||| | ||  | |||||||| || ||||| ||||| || || || |||||||| ||||| || ||||| |||||||| ||||||||||| || ||  | ||  
gtactaaattgtgcatgacacatcagtcttggcaacataaaatgaggtcttacttggagttgatgttttaccagCTTCAAAACTGGAATGGAGGCCCACCAAATATATACGACATAAGTGGAAGCGCACATTTTATAAACAAATGTGATAATGGAATTGTCATCCACAGAAACA
















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|110393756|gb|EC959221.1|EC959221
EST:     TTGCTCAGCATCACTCTTGTCACGTTTGGTTTGTAGCACATCCTAGACAG                         TTGCACCAATGGAATGGGGGTCCACCTAATATGTATGATATCAGTGGAAGT
genomic: TTGCTCAGCATCACTCTTGTCACGTTTGGTTTGTAGCACATCCTAGACAGgtttgtcctt ... ctcttaccagTTGCACCAATGGAATGGGGGTCCACCTAATATGTATGATATCAGTGGAAGT
EST: gi|110367656|gb|EC931602.1|EC931602
EST:     TTGCTCAGCATCACTCTTGTCACGTTTGGTTTGTAGCACATCCTAGACAG                         TTGCACCAATGGAATGGGGGTCCACCTAATATGTATGATATCAGTGGAAGT
genomic: TTGCTCAGCATCACTCTTGTCACGTTTGGTTTGTAGCACATCCTAGACAGgtttgtcctt ... ctcttaccagTTGCACCAATGGAATGGGGGTCCACCTAATATGTATGATATCAGTGGAAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acctctattttgctaacctgtatcttcatttttctgaccttttgactcttaccagTTGCACCAATGGAATGGGGGTCCACCTAATATGTATGATATCAGTGGAAGTGCACACTTCATAAATAAATGTGACAATGGAATTGTTATTCATCGTAATC
                                             ctcttacc  CT-rich tract
                        ttcattttt  TA-rich tract