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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtttatttggatttctggcttcattataaatacctcacacttatggtttcatctttgagttactttttcctactttgtttagactatgaggagagggtatttggcctaataatttctaaaacttcatatcttgttcttagCCAGTGGGAAAGCAGCAGAGTTTGGCCCCCTTAAAGACGGCTACATGTTTGAGTCATCAACAGGCCTATCACGAAT

Basic information

species Vitis vinifera
transcript Vv17s0000g08490.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0000g08490.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA02G12480.1 (Glycine max), 3'ss of exon 7
gttagtttatttggatttctggcttcattataaatacctcacacttatggtt-tcatctttgagttactttttcctactttgtttagactatgaggagagggtatttggcctaataatttctaaaacttcatatcttgttc--ttagCCAGTGGGAAAGCAGCAGAGTTTGGCCCCCTTAAAGACGGCTACATGTTTGAGTCATCAACAGGCCTATCACGAAT
    ||   | |   ||   | | ||||| ||| | | |      | ||  | |||  | |  |||  ||||      |  ||| |   |||    |     | ||||      | | |  |  |  ||  |    ||||   ||||||||||||||||||||||| |||||  |||| ||||| ||||| ||||||||||   |||| || || ||| | ||
----gtaggtgtttgttctcgacctcattttaagttcttattttctgtgcctatcaattataggtt--ttttgttggttaagttaaatttatttctattttatttttgctgacttgactcttttattttgtttcggtgtttgtttagCCAGTGGGAAAGCAGCAGAATTTGGTGCCCTAAAAGATGGCTATATGTTTGAGTGTACAACGGGTCTCTCAAGGAT

upper sequence: Vv17s0000g08490.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA01G06540.1 (Glycine max), 3'ss of exon 8
gttagtttatttggatttctggcttcattataaatacct-cacacttatggtttcatctttgagttactttttcctactttgtttagactatgaggagagggtatttggcctaataatttctaaaacttcatatcttgttcttagCCAGTGGGAAAGCAGCAGAGTTTGGCCCCCTTAAAGACGGCTACATGTTTGAGTCATCAACAGGCCTATCACGAAT
  ||| |  |||   ||| | | ||   | |   |     |  | |||| | ||  | |||   |   |   |   | |||||||    |||      ||   |  |  ||      ||| |     ||      |||||  |||||||||||||||| ||||| |||||  |||| ||||| ||||| ||||||||||   ||||||| | |||| | ||
-gtaggtgttttatcttttttgtttttctgtgcctcttaacttaattatagattttttttttgttgtttacgtttaaatttgtttgttttatttttgcag---acctaaccctgccttttattttgttttggtgtttgtt--tagCCAGTGGGAAAGCTGCAGAATTTGGTGCCCTAAAAGATGGCTATATGTTTGAGTGTACAACAGGTCAATCAAGGAT
















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|110419697|gb|EC985945.1|EC985945
EST:     AGTGGTCAAGGCAAACACAGGCATGAATCCTGAGCTTTCATGCACTGATG                         CCAGTGGGAAAGCAGCAGAGTTTGGCCCCCTTAAAGACGGCTACATGTTTG
genomic: AGTGGTCAAGGCAAACACAGGCATGAATCCTGAGCTTTCATGCACTGATGgttagtttat ... ttgttcttagCCAGTGGGAAAGCAGCAGAGTTTGGCCCCCTTAAAGACGGCTACATGTTTG
EST: gi|27755420|gb|CB036175.1|CB036175
EST:     AGTGGTCAAGGCAAACACAGGCATGAATCCTGAGCTTTCATGCACTGATG                         CCAGTGGGAAAGCAGCAGAGTTTGGCCCCCTTAAAGACGGCTACATGTTTG
genomic: AGTGGTCAAGGCAAACACAGGCATGAATCCTGAGCTTTCATGCACTGATGgttagtttat ... ttgttcttagCCAGTGGGAAAGCAGCAGAGTTTGGCCCCCTTAAAGACGGCTACATGTTTG
EST: gi|34550415|gb|CF518633.1|CF518633
EST:     AGTGGTCAAGGCAAACACAGGCATGAATCCTGAGCTTTCATGCACTGATG                         CCAGTGGGAAAGCAGCAGAGTTTGGCCCCCTTAAAGACGGCTACATGTTTG
genomic: AGTGGTCAAGGCAAACACAGGCATGAATCCTGAGCTTTCATGCACTGATGgttagtttat ... ttgttcttagCCAGTGGGAAAGCAGCAGAGTTTGGCCCCCTTAAAGACGGCTACATGTTTG
EST: gi|22015330|gb|BQ800364.1|BQ800364
EST:     AGTGGTCAAGGCAAACACAGGCATGAATCCTGAGCTTTCATGCACTGATG                         CCAGTGGGAAAGCAGCAGAGTTTGGCCCCCTTAAAGACGGCTACATGTTTG
genomic: AGTGGTCAAGGCAAACACAGGCATGAATCCTGAGCTTTCATGCACTGATGgttagtttat ... ttgttcttagCCAGTGGGAAAGCAGCAGAGTTTGGCCCCCTTAAAGACGGCTACATGTTTG
EST: gi|110408373|gb|EC974008.1|EC974008
EST:     AGTGGTCAAGGCAAACACAGGCATGAATCCTGAGCTTTCATGCACTGATG                         CCAGTGGGAAAGCAGCAGAGTTTGGCCCCCTTAAAGACGGCTACATGTTTG
genomic: AGTGGTCAAGGCAAACACAGGCATGAATCCTGAGCTTTCATGCACTGATGgttagtttat ... ttgttcttagCCAGTGGGAAAGCAGCAGAGTTTGGCCCCCTTAAAGACGGCTACATGTTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgaggagagggtatttggcctaataatttctaaaacttcatatcttgttcttagCCAGTGGGAAAGCAGCAGAGTTTGGCCCCCTTAAAGACGGCTACATGTTTGAGTCATCAACAGGCCTATCACGAAT
                            ttctaaa  putative branch site (score: 2)
                                           tcttgttctt  putative PPT
                     taataatttctaaaac  TA-rich tract