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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaactggtagttccatttctgtgtagataatgctgagctttttcgagtcccattgttccctcattgtattgattgtggcttgttcagGATTTGAATCACCCGGTGAATGGGATGACCACCATAGGATTTTTGGTCTGGATGGTCCAGATATCCAGTACTCG

Basic information

species Vitis vinifera
transcript Vv05s0020g00460.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0020g00460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G36110.1 (Glycine max), 3'ss of exon 3
gtaaactggtagttccatttctgtgtagataatgctgagctttttcgagtcccattgttccctcattgtattgattgtggcttgttcagGATTTGAATCACCCGGTGAATGGGATGACCACCATAGGATTTTTGGTCTGGATGGTCCAGATATCCAGTACTCG
||||| |   | ||  || |||  |     | | |   |  | || |      ||  |     |    |||| ||| ||| |     |||||||||||||||||| |||||||| ||||||||||||||||||||| | |||||||| ||||| |||||| | 
gtaaaatcagaattatatgtcttggcttg-agttcgtggtatattgggtatgaatcatattgactagttatttattatggtt-----agGATTTGAATCACCCGGAGAATGGGAGGACCACCATAGGATTTTTGGTGTAGATGGTCCTGATATTCAGTACACA

upper sequence: Vv05s0020g00460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA09G03590.1 (Glycine max), 3'ss of exon 1
gtaaac-tggtagttccatttctgtgtagataatgctgagctttttcgagtcccattgttccctcattgtattgattgtggcttgttcagGATTTGAATCACCCGGTGAATGGGATGACCACCATAGGATTTTTGGTCTGGATGGTCCAGATATCCAGTACTCG
|||||  |   ||   ||| | |||     | ||  |||   |     |     |||| |      ||  ||| | ||||     || |||||||||| ||||||| |||||||| ||||||||||||||||||||| | ||||||||  |||| |||| |  |
gtaaatataaaagcatcatat-tgttacttttattttgacagtgcataa----tattgattatctgtt--attcactgtg-----tttagGATTTGAAACACCCGGGGAATGGGAGGACCACCATAGGATTTTTGGTGTAGATGGTCCCAATATTCAGTTCATG

upper sequence: Vv05s0020g00460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA15G14490.1 (Glycine max), 3'ss of exon 3
gtaaactggtagttccatttctgtgtagataatgctgagctttttcgagtcccattgttccctcattgtattgattgtggcttgttcagGATTTGAATCACCCGGTGAATGGGATGACCACCATAGGATTTTTGGTCTGGATGGTCCAGATATCCAGTACTCG
||||| |   |    |  |  |||   | | ||  ||| |  |    | |     |  ||  | ||| | |           |||| |||||||| | ||||||| |||  ||| ||||| ||||||||||||||| | ||||||||  |||| |||| | ||
gtaaatttaaaagcaccatattgttacgtttattttga-cagtgcataatattgataatctgttattctctg----------tgtttagGATTTGGAACACCCGGGGAACAGGAGGACCAGCATAGGATTTTTGGTGTAGATGGTCCCAATATTCAGTTCACG

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|161720955|gb|FC070341.1|FC070341
EST:     CCAGAACTTGTATTATCCTACTGCCACCAACTATGGGTATTACTGTACAG                         GATTTGAATCACCCGGTGAATGGGATGACCACCATAGGATTTTTGGTCTGG
genomic: TCAGAACTTGTATTATCCTACTGCCACCAACTATGGGTATTACTGTACAGgtaaactggt ... gcttgttcagGATTTGAATCACCCGGTGAATGGGATGACCACCATAGGATTTTTGGTCTGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgagctttttcgagtcccattgttccctcattgtattgattgtggcttgttcagGATTTGAATCACCCGGTGAATGGGATGACCACCATAGGATTTTTGGTCTGGATGGTCCAGATATCCAGTACTCG
                                  tattgat  putative branch site (score: 3)
                                              cttgttc  putative PPT
                              attgtatt  TA-rich tract