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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgtttatgggcttcatatttgctcagaataggttattctatcattattttgaattccaaatctattagagattgtgcttggttgctctctggaggaaaattttatgtagtatgtaaattgttgacactaactgttatatcctcttttctaaatgtagTCCTCATTGCTTAAAAAAGCCGAAGATGCTGAAGTTGACACTGCAGAGCAAAGTGCTATCAAGTTGCGGGCACAGCAGCAGACTTCAAATGCTTTGGTTG

Basic information

species Vitis vinifera
transcript Vv06s0061g01170.t01
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: LOC_Os03g02150.2 (Oryza sativa), 3'ss of exon 17
----------------------gtgtgtttatgggct------tcatatttgctcagaataggttattctatcattattttgaattccaaatctattagagattgtgcttggttgctctc---tggaggaaaattttatgtagtatgtaaattgttgacactaactgttatatcct------------cttttctaaatgtagTCCTCATTGCTTAAAAAAGCCGAAGATGCTGAAGTTGACACTGCAGAGCAAAGTGCTATCAAGTTGCGGGCACAGCAGCAGACTTCAAATGCTTTGGTTG
                      || |  | |  |  |      | | || | ||   |      |||  | |||   ||| |  |   ||||||       ||  | | ||  | |||||   |      | |  |||| | | ||        || ||| | | |  | | || |            ||| || ||   |||||  |  || | || || || ||||||||||| |||||||| ||||||||||||||||| || || ||    ||||| || || || | |||| | ||  
gtaaattttcatcctgttgcatgtatactcacagtttacggtattaaatcttcttctagccacatatattctcacactttagtgtatgaaatctgc-----atcttacatgtgtactctcaatttactatataacttatcttgcattcgttccattaacaatgatttgtttttcttactatggatttacttgtcgaatcttagTCTGCTCTGTTGAAGAAGGCTGAAGATGCTGAGGTTGACACAGCAGAGCAAAGTGCTATAAAATTACGAAGTCAGCAACAAACATCGAGTGCTATTGTCA
















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|34543150|gb|CF511382.1|CF511382
EST:     CGGCTTTAATGGATATATTGGCTGAAATGCCTAAATTCCCTGAGCGTCAG                         TCCTCATTGCTTAAAAAAGCCGAAGATGCTGAAGTTGACACTGCAGAGCAA
genomic: CGGCTTTAATGGATATATTGGCTGAAATGCCTAAATTCCCTGAGCGTCAGgtgtgtttat ... ctaaatgtagTCCTCATTGCTTAAAAAAGCCGAAGATGCTGAAGTTGACACTGCAGAGCAA
EST: gi|110379780|gb|EC944999.1|EC944999
EST:     CGGCTTTAATGGATATATTGGCTGAAATGCCTAAATTCCCTGAGCGTCAG                         TCCTCATTGCTTAAAAAAGCCGAAGATGCTGAAGTTGACACTGCAGAGCAA
genomic: CGGCTTTAATGGATATATTGGCTGAAATGCCTAAATTCCCTGAGCGTCAGgtgtgtttat ... ctaaatgtagTCCTCATTGCTTAAAAAAGCCGAAGATGCTGAAGTTGACACTGCAGAGCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgtagtatgtaaattgttgacactaactgttatatcctcttttctaaatgtagTCCTCATTGCTTAAAAAAGCCGAAGATGCTGAAGTTGACACTGCAGAGCAAAGTGCTATCAAGTTGCGGGCACAGCAGCAGACTTCAAATGCTTTGGTTG
                               ttatatcctcttttct  CT-rich tract
       tatgtaaatt  TA-rich tract