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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgatgcctctttgactgcttctagctatttatcttgttcaatacattattttactaaaaattattttggcagGTTGGGTTGGAGTTGGTTCCAAGAGATTATGACATGGAATGCCCAAACCCCTTCAGGAAACATGACATTATCAGCATGGTTCCTGTGTGTAAG

Basic information

species Vitis vinifera
transcript Vv09s0002g07530.t01
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0002g07530.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA07G03250.1 (Glycine max), 3'ss of exon 15
gtat-gatgcctctttgactgcttctagctatttatcttgttcaatacatta-ttttactaaaaattattttggcagGTTGGGTTGGAGTTGGTTCCAAGAGATTATGACATGGAATGCCCAAACCCCTTCAGGAAACATGACATTATCAGCATGGTTCCTGTGTGTAAG
||||      ||| | | ||  |||||  | |||    ||     |  |||| ||  |||     ||||| |  |||||||| ||||| ||| | |||||||||||||||||||| | |   || |||||  ||||| |||| ||||||||| |||||||||| || |||
gtatcagcatctcgtcgtcttgttctattttttttagatgaagtttttattaattgcacttgtttttattct--cagGTTGGATTGGAATTGTTCCCAAGAGATTATGACATGGAGTCCAGTAAGCCCTTTGGGAAAAATGATATTATCAGCCTGGTTCCTGTTTGCAAG

upper sequence: Vv09s0002g07530.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA08G22850.1 (Glycine max), 3'ss of exon 13
gtat-gatgcctctttgactgcttctagctatttatcttgttcaatacatta-ttttactaaaaattattttggcagGTTGGGTTGGAGTTGGTTCCAAGAGATTATGACATGGAATGCCCAAACCCCTTCAGGAAACATGACATTATCAGCATGGTTCCTGTGTGTAAG
||||   |  ||| | | ||  |||||  | |||    ||     |  |||| ||  |||     ||||| |  |||||||| ||||| ||| | |||||||||||||||||||| | |   || |||||  || || |||| ||||||||| |||||||||| || |||
gtatcagtatctcgtcgtcttgttctattttttttagatgaagtttttattaattgcacttgtttttattct--cagGTTGGATTGGAATTGTTCCCAAGAGATTATGACATGGAGTCCAGTAAGCCCTTTGGGGAAAATGATATTATCAGCCTGGTTCCTGTTTGCAAG
















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|30326937|gb|CD010199.1|CD010199
EST:     AGTTTAAACACTTGAGGAAGTTCTCAATTCTTCGAGGACTTTGCCAAAAG                         GTTGGGTTGGAGTTGGTTCCAAGAGATTATGACATGGAATGCCCAAACCCC
genomic: AGTTTAAACACTTGAGGAAGTTCTCAATTCTTCGAGGACTTTGCCAAAAGgtatgatgcc ... attttggcagGTTGGGTTGGAGTTGGTTCCAAGAGATTATGACATGGAATGCCCAAACCCC
EST: gi|32272114|gb|CD721273.1|CD721273
EST:     AGTTTAAACACTTGAGGAAGTTCTCAATTCTTCGAGGACTTTGCCAAAAG                         GTTGGGTTGGAGTTGGTTCCAAGAGATTATGACATGGAATGCCCAAACCCC
genomic: AGTTTAAACACTTGAGGAAGTTCTCAATTCTTCGAGGACTTTGCCAAAAGgtatgatgcc ... attttggcagGTTGGGTTGGAGTTGGTTCCAAGAGATTATGACATGGAATGCCCAAACCCC
EST: gi|32248906|gb|CD714725.1|CD714725
EST:     AGTTTAAACACTTGAGGAAGTTCTCAATTCTTCGAGGACTTTGCCAAAAG                         GTTGGGTTGGAGTTGGTTCCAAGAGATTATGACATGGAATGCCCAAACCCC
genomic: AGTTTAAACACTTGAGGAAGTTCTCAATTCTTCGAGGACTTTGCCAAAAGgtatgatgcc ... attttggcagGTTGGGTTGGAGTTGGTTCCAAGAGATTATGACATGGAATGCCCAAACCCC
EST: gi|32249415|gb|CD715234.1|CD715234
EST:     AGTTTAAACACTTGAGGAAGTTCTCAATTCTTCGAGGACTTTGCCAAAAG                         GTTGGGTTGGAGTTGGTTCCAAGAGATTATGACATGGAATGCCCAAACCCC
genomic: AGTTTAAACACTTGAGGAAGTTCTCAATTCTTCGAGGACTTTGCCAAAAGgtatgatgcc ... attttggcagGTTGGGTTGGAGTTGGTTCCAAGAGATTATGACATGGAATGCCCAAACCCC
EST: gi|294966003|gb|GW839342.1|GW839342
EST:     AGTTTAAACACTTGAGGAAGTTCTCAATTCTTCGAGGACTTTGCCAAAAG                         GTTGGGTTGGAGTTGGTTCCAAGAGATTATGACATGGAATGCCCAAACCCC
genomic: AGTTTAAACACTTGAGGAAGTTCTCAATTCTTCGAGGACTTTGCCAAAAGgtatgatgcc ... attttggcagGTTGGGTTGGAGTTGGTTCCAAGAGATTATGACATGGAATGCCCAAACCCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttctagctatttatcttgttcaatacattattttactaaaaattattttggcagGTTGGGTTGGAGTTGGTTCCAAGAGATTATGACATGGAATGCCCAAACCCCTTCAGGAAACATGACATTATCAGCATGGTTCCTGTGTGTAAG
                                  tactaaa  putative branch site (score: 1)
                                           ttatttt  putative PPT
        tatttatcttgttcaa  TA-rich tract