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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcatgacccttggaaaccagagtatggtctctttctcttccttaattaactggcacaaagctgcaagTTTAGCAGATTCTTCACCGGCAACGGTTCCCTTGCCCCTTCGTGTTGAGCCCAAGCCAAAGAGTGGGATTAG

Basic information

species Vitis vinifera
transcript Vv16s0039g00280.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0039g00280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA16G33570.2 (Glycine max), 3'ss of exon 4
----------------------------------------gcatgacc-cttgga---aaccagagtatggtctctttctcttccttaattaactggcacaaagctgcaagTTTAGCAGATTCTTCACCGGCAACGGTTCCCTTGCCCCTTCGTGTTGAGCCCAAGCCAAAGAGTGGGATTAG
                                          |  |   ||||     ||   |  | |  |||  |  |   |||| |  ||     ||| |||||||||||||||||||||||||||  |  | || ||  || |  |||| |||||||| || || || |||||||| ||
ttgtgaaagctatgttaaatgtagtggtcaagtttttctgatacaattgcttgtgcttaagttgtatgtattcttctgtttccccttgaccaatgaatacAGAGCTGCAAGTTTAGCAGATTCTTCACCCACCTCAGTACCTCTGGCATTTCGGGTTGAGCCGAAACCCAAAAGTGGGATCAG

upper sequence: Vv16s0039g00280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA09G28980.2 (Glycine max), 3'ss of exon 4
----------------------------------------gcatgacc-cttgga---aaccagagtatggtctctttctcttccttaattaactggcacaaagctgcaagTTTAGCAGATTCTTCACCGGCAACGGTTCCCTTGCCCCTTCGTGTTGAGCCCAAGCCAAAGAGTGGGATTAG
                                          |  |   ||||     ||   |  | |  |||  |  |   ||||||  |      ||| ||||||||||||||||||||||||||| ||| | || ||  || |  |||| |||||||| ||||| || |||||||| ||
tgtgaaagctatattaaatggtagtggtaaactttttctgatacaattgcttgtgcttaagttgtatgtattcttctgtttccccttaaccagtgaatacAGAGCTGCAAGTTTAGCAGATTCTTCACCTGCATCAGTACCACTGGCATTTCGGGTTGAGCCAAAGCCCAAAAGTGGGATCAG

upper sequence: Vv16s0039g00280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G73350.2 (Arabidopsis thaliana), 3'ss of exon 4
-----------------------------------------------gcatgacccttggaaaccagagtatggtctctttctcttccttaattaactggcacaaagctgcaagTTTAGCAGATTCTTCACCGGCAACGGTTCCCTTGCCCCTTCGTGTTGAGCCCAAGCCAAAGAGTGGGATTAG
                                                  |||    |     ||    | |  | |  |  |||| ||| |  |  |  |||||||||||||    ||| ||||| || || ||| |  |||||||||| |||||||| |||||||| ||||||||||| || ||
atatcctttcttaaatgctcagatatcatgattttgagcactaagttatttgatatatacttgcctagatgtttttttgtaatctttcttgaccatatatcacAAAGCTGCAACCCAAGCTGATTCATCTCCAGCATCTATTCCCTTGCCACTTCGTGTGGAGCCCAAACCAAAGAGTGGTATCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaaaccagagtatggtctctttctcttccttaattaactggcacaaagctgcaagTTTAGCAGATTCTTCACCGGCAACGGTTCCCTTGCCCCTTCGTGTTGAGCCCAAGCCAAAGAGTGGGATTAG
                               aattaac  putative branch site (score: 2)
                             ttaattaact  TA-rich tract