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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcctgctttaaacccgctcctcatgcaaactcatttccatttttaaatgtcaattgctttatttgatgcagttcttattatgatttcttagGAAGTTATTAAGGCGATATCAGGCAAGGGTGATCCCTTGAAGAATTTCTTCTTTTTTGATGCCATTGATGGTAAAGGCATAATAGAAGACATATCAAACC

Basic information

species Vitis vinifera
transcript Vv17s0000g01270.t01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0000g01270.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA08G01440.1 (Glycine max), 3'ss of exon 10
gtgcctgctttaaacccgctcctcatgcaaactcatttccatttttaaatgtcaattgct--ttatttgatgcagttcttattatgatttcttagGAAGTTATTAAGGCGATATCAGGCAAGGGTGATCCCTTGAAGAATTTCTTCTTTTTTGATGCCATTGATGGTAAAGGCATAATAGAAGACATATCAAACC
                 |    | |   |   |||||    |||  | |||||   || |  |||  |||    |||    || | |  ||  |||| ||||| || || || || || || || || ||| | |||||||| ||||||||||||||  ||||||| || ||||| ||||||||| | ||     
-----------------gtattttac-tagtttcattgtgctttaaagatgtcttgtgatatttaactgactaggttgacttt-taaaatcacagGAGGTTATCAAAGCAATTTCTGGGAAAGGAGACCCCCTAAAGAATTTTTTCTTTTTTGATGCTTTTGATGGGAAGGGCATTATAGAAGACCTCTCTCCGA
















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|110416688|gb|EC982685.1|EC982685
EST:     CAAGTGAATTCCCTCCGGTTTGTGCCATCCTTGGAGGAATCCTAGGACAG                         GAAGTTATTAAGGCGATATCAGGCAAGGGTGATCCCTTGAAGAATTTCTTC
genomic: CAAGTGAATTCCCTCCGGTTTGTGCCATCCTTGGAGGAATCCTAGGACAGgtgcctgctt ... gatttcttagGAAGTTATTAAGGCGATATCAGGCAAGGGTGATCCCTTGAAGAATTTCTTC
EST: gi|110389300|gb|EC954126.1|EC954126
EST:     CAAGTGAATTCCCTCCGGTTTGTGCCATCCTTGGAGGAATCCTAGGACAG                         GAAGTTATTAAGGCGATATCAGGCAAGGGTGATCCCTTGAAGAATTTCTTC
genomic: CAAGTGAATTCCCTCCGGTTTGTGCCATCCTTGGAGGAATCCTAGGACAGgtgcctgctt ... gatttcttagGAAGTTATTAAGGCGATATCAGGCAAGGGTGATCCCTTGAAGAATTTCTTC
EST: gi|110421721|gb|EC988021.1|EC988021
EST:     CAAGTGAATTCCCTCCGGTTTGTGCCATCCTTGGAGGAATCCTAGGACAG                         GAAGTTATTAAGGCGATATCAGGCAAGGGTGATCCCTTGAAGAATTTCTTC
genomic: CAAGTGAATTCCCTCCGGTTTGTGCCATCCTTGGAGGAATCCTAGGACAGgtgcctgctt ... gatttcttagGAAGTTATTAAGGCGATATCAGGCAAGGGTGATCCCTTGAAGAATTTCTTC
EST: gi|110424420|gb|EC990781.1|EC990781
EST:     CAAGTGAATTCCCTCCGGTTTGTGCCATCCTTGGAGGAATCCTAGGACAG                         GAAGTTATTAAGGCGATATCAGGCAAGGGTGATCCCTTGAAGAATTTCTTC
genomic: CAAGTGAATTCCCTCCGGTTTGTGCCATCCTTGGAGGAATCCTAGGACAGgtgcctgctt ... gatttcttagGAAGTTATTAAGGCGATATCAGGCAAGGGTGATCCCTTGAAGAATTTCTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccatttttaaatgtcaattgctttatttgatgcagttcttattatgatttcttagGAAGTTATTAAGGCGATATCAGGCAAGGGTGATCCCTTGAAGAATTTCTTCTTTTTTGATGCCATTGATGGTAAAGGCATAATAGAAGACATATCAAACC
                        atttgat  putative branch site (score: 5)
                                               tttctt  putative PPT
                                      ttattatgatttctta  TA-rich tract