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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgatcaactgattcagattgtgtttatggcaagaaggccttgttatgtgaagatgcatttatgagctgatttcagGTTGCCTTAAACATACTAAGAGAGGAAGGAGTTGCATCCTTCTATAAGGGTCTTGGACCTTCTCTTCTTGGAATAGCACCTTACATTGCTGTGAACTTTT

Basic information

species Vitis vinifera
transcript Vv08s0007g02230.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0007g02230.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA07G18140.1 (Glycine max), 3'ss of exon 6
gtatgatcaactgattcagattgtgtttatggcaagaaggcct-tgttatg--tgaagatgcat--ttatgagctgatttcagGTTGCCTTAAACATACTAAGAGAGGAAGGAGTTGCATCCTTCTATAAGGGTCTTGGACCTTCTCTTCTTGGAATAGCACCTTACATTGCTGTGAACTTTT
    |   |||||||| ||    | ||||||  ||    |||| ||| | |  |||| ||| |   |  || |     | ||||||||||||| ||| ||||| ||||||||| ||||||| ||||||   || ||||| ||||||||  ||| |||||| ||||| ||||| ||||||||||
----gtataactgatttag----tatttatgcaaaatctgcctctgtgaagaatgaacatgaaccatattgtggcttctccagGTTGCCTTAAGCATGCTAAGGGAGGAAGGATTTGCATCTTTCTATCGTGGCCTTGGGCCTTCTCTAATTGCAATAGCTCCTTATATTGCAGTGAACTTTT

upper sequence: Vv08s0007g02230.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA01G28890.1 (Glycine max), 3'ss of exon 4
gtatgatcaactgattcagattgtgtttatggcaagaaggccttgttatgtgaagatgcat-ttatgagctgatttcagGTTGCCTTAAACATACTAAGAGAGGAAGGAGTTGCATCCTTCTATAAGGGTCTTGGACCTTCTCTTCTTGGAATAGCACCTTACATTGCTGTGAACTTTT
|||| || || |||      | |  ||| |  | |||   | |  |    | | ||  ||| |||||   |  ||  |||||||||| | ||| ||||||||||||||| ||||||| |||||  | || ||||| ||||||||  |||||||||| || || ||||| ||||||||||
gtat-ataaattgacgtttttaggttttttcactagat--cttcatctgctaatgaaccatgttatggctt--ttctagGTTGCCTTGAGCATGCTAAGAGAGGAAGGATTTGCATCTTTCTACTATGGCCTTGGGCCTTCTCTGATTGGAATAGCTCCATATATTGCAGTGAACTTTT

upper sequence: Vv08s0007g02230.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA03G08120.1 (Glycine max), 3'ss of exon 6
--gtatga-tcaactgattcagattgtgtttatggcaagaaggccttgttatgtgaagatgcatttatgagctgatttcagGTTGCCTTAAACATACTAAGAGAGGAAGGAGTTGCATCCTTCTATAAGGGTCTTGGACCTTCTCTTCTTGGAATAGCACCTTACATTGCTGTGAACTTTT
   ||| | | | |   ||||  |  | || |  | |       ||  |||||  |  ||    || |||  |  ||  ||||||| || | ||| ||||||||||||||| ||||||| |||||  | || ||||| ||||||||  |||||||||| || || ||||| ||||||||||
gtatataaattagcctgttcaagt-attttcaccggatcttcatctgcttatg-aaccata---ttgtgactt--ttctagGTTGCGTTGAGCATGCTAAGAGAGGAAGGATTTGCATCTTTCTACTATGGCCTTGGGCCTTCTCTGATTGGAATAGCTCCATATATTGCAGTGAACTTTT

upper sequence: Vv08s0007g02230.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA03G10900.1 (Glycine max), 3'ss of exon 3
gtatgatcaactgattcagattgtgtttatggcaagaaggccttgttatgtgaag------------atgcatttatgagc-------tgattt---cagGTTGCCTTAAACATACTAAGAGAGGAAGGAGTTGCATCCTTCTATAAGGGTCTTGGACCTTCTCTTCTTGGAATAGCACCTTACATTGCTGTGAACTTTT
                                                                   ||    |||||| |       ||| ||    ||||||| || | ||| ||||||||||||||| ||||||| |||||  | || ||||| ||||||||  |||||||||| || || ||||| ||||||||||
nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntcactggatcttcatctgcttatgaaccatattgtgacttttctagGTTGCGTTGAGCATGCTAAGAGAGGAAGGATTTGCATCTTTCTACTATGGCCTTGGGCCTTCTCTGATTGGAATAGCTCCATATATTGCAGTGAACTTTT

upper sequence: Vv08s0007g02230.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT5G01500.1 (Arabidopsis thaliana), 3'ss of exon 6
gtatgatcaactgatt-cagattgtgtttatggcaagaaggccttgttatgtgaagatgcatttatgagctgatttcagGTTGCCTTAAACATACTAAGAGAGGAAGGAGTTGCATCCTTCTATAAGGGTCTTGGACCTTCTCTTCTTGGAATAGCACCTTACATTGCTGTGAACTTTT
||||  ||| |  |||  | |     ||| |       |    |  | | ||    | |||   |||   |   |  |||||||||| ||||| ||  | ||||||||||||||||| ||||| || ||||| || ||||| ||| |  | ||||| |||||||||||  | ||||| |
gtatattcatcgcattatacaccaactttctcttccataaat-taatcaggttttaaagcagacatgtcata--tctagGTTGCCTTGAACATGCTGCGGGAGGAAGGAGTTGCATCATTCTACAACGGTCTAGGTCCTTCGCTTTTAAGTATAGCTCCTTACATTGCCATCAACTTCT

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|32249786|gb|CD715605.1|CD715605
EST:     TACTTAGGTTAAGGCTAGCAGTTGAGCCAGGCCATCAAACTATGTCTGAG                         GTTGCCTTAAACATACTAAGAGAGGAAGGAGTTGCATCCTTCTATAAGGGT
genomic: TACTTAGGTTAAGGCTAGCAGTTGAGCCAGGCCATCAAACTATGTCTGAGgtatgatcaa ... ctgatttcagGTTGCCTTAAACATACTAAGAGAGGAAGGAGTTGCATCCTTCTATAAGGGT
EST: gi|32268229|gb|CD717388.1|CD717388
EST:     TACTTAGGTTAAGGCTAGCAGTTGAGCCAGGCCATCAAACTATGTCTGAG                         GTTGCCTTAAACATACTAAGAGAGGAAGGAGTTGCATCCTTCTATAAGGGT
genomic: TACTTAGGTTAAGGCTAGCAGTTGAGCCAGGCCATCAAACTATGTCTGAGgtatgatcaa ... ctgatttcagGTTGCCTTAAACATACTAAGAGAGGAAGGAGTTGCATCCTTCTATAAGGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtttatggcaagaaggccttgttatgtgaagatgcatttatgagctgatttcagGTTGCCTTAAACATACTAAGAGAGGAAGGAGTTGCATCCTTCTATAAGGGTCTTGGACCTTCTCTTCTTGGAATAGCACCTTACATTGCTGTGAACTTTT
                                           agctgat  putative branch site (score: 4)
                                    atttatga  TA-rich tract