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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttttttacagctgatttttcatttccttatatcatggttatttagttgtctcttaacagtaaattttgttttttcagaaactactctattatttgagctgatgcttaaatttgacttattcctcccttccaatctttgcagAAAGCACCTATTGATCCATTTACTCGAGAAACTTGCAAGCCATCAGCATCGCAAGGGGTTCCTCTCGGAGGGATGGG

Basic information

species Vitis vinifera
transcript Vv05s0051g00910.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0051g00910.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G33990.1 (Glycine max), 3'ss of exon 3
gtaatttttttacagctgatttttcatttccttatatcatggttatttagttgtctcttaacagtaaattttgttttttcagaaactactctattatttgagctgatgcttaaatttgacttattcctcccttccaatctttgcagAAAGCACCTATTGATCCATTTACTCGAGAAACTTGCAAGCCATCAGCATCGCAAGGGGTTCCTCTCGGAGGGATGGG
                                || ||      |  |   |  | | ||     |  |||    | | |  |     | |  |||| |   | |||  ||||     || | |||  |     |  || | |||||||||||||||||||||| || |||||||||| |||||||||||| ||||| ||||| || || ||||||||||||||
-------------------------------gtagatttcaaattctacttcattttttggtcatttattgctctatgtgtgggcacattagattagt-atgttgaaccttag----gattcatttttttggcctcatttctgcagAAAGCACCTATTGATCCTTTCACTCGAGAAAGTTGCAAGCCATCTGCATCTCAAGGAGTCCCACTCGGAGGGATGGG

upper sequence: Vv05s0051g00910.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G33610.1 (Glycine max), 3'ss of exon 4
gtaatttttttacagctgatttttcatttccttatatcatggttatttagttgtctcttaacagtaaattttgttttttcagaaactactctattatttgagctgatgcttaaattt---gactt-attcctcccttccaatctttgcagAAAGCACCTATTGATCCATTTACTCGAGAAACTTGCAAGCCATCAGCATCGCAAGGGGTTCCTCTCGGAGGGATGGG
                                || ||      |  |   |  | | ||     |  |||    | | |  |    ||||  | || |   | |||  ||||   ||   ||||| |||        |   | | | |||||||| ||||||||||| || |||||||||| |||||||||||| ||||| ||||| ||||| || |||||||||||
-------------------------------gtagatttcaaattctccttcattttttggtcattcattgctgtctctgtgtgggtactagagtaat-atgttgaaacttaggattccagacttcattttgttggcctgttttcttcagAAAGCGCCTATTGATCCTTTCACTCGAGAAAGTTGCAAGCCATCTGCATCTCAAGGAGTTCCACTTGGAGGGATGGG
















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|122690930|gb|EC963175.1|EC963175
EST:     TTGGTATACGCTTGTGGTCCTATATTAGAGAAGAGGCCTCTCAGAAAAGG                         AAAGCACCTATTGATCCA
genomic: TTGGTATACGCTTGTGGTCCTATATTAGAGAAGAGGCCTCTCAGGGAAGGgtaatttttt ... atctttgcagAAAGCACCTATTGATCCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattatttgagctgatgcttaaatttgacttattcctcccttccaatctttgcagAAAGCACCTATTGATCCATTTACTCGAGAAACTTGCAAGCCATCAGCATCGCAAGGGGTTCCTCTCGGAGGGATGGG
                      atttgac  putative branch site (score: 4)
                            cttattcctcccttcc  CT-rich tract
                  ttaaatttgacttatt  TA-rich tract