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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgaaattctcttttcgttgcatgattcttgcatgcgcgctatatgtgtgtgtatctgcacacattattattattattattatataattttaaatggttttacatttgcaactgtttctaattttcagTTTTTTGAGCATGGACTAGTATCCCAGAGAAGAGAACTGGCTGGCAAGCTTTATGGTCATGTACTGACACTTAGCCTTCAAATGTATGGTTGTCGAGTGA

Basic information

species Vitis vinifera
transcript Vv06s0004g05100.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g05100.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G14550.1 (Glycine max), 3'ss of exon 6
gtatgaaattctcttttcgttgcatgattcttgcatgcgcgctatatgtgtgtgtatctgcacacattattattatt-attattatataattttaaatggttt-tacatttgcaactgtttctaattttcagTTTTTTGAGCATGGACTAGTATCCCAGAGAAGAGAACTGGCTGGCAAGCTTTATGGTCATGTACTGACACTTAGCCTTCAAATGTATGGTTGTCGAGTGA
                                            ||  | |   | | |  |   |||||| |  || || | | |   ||    ||| |||  ||     | ||  || | |    | |||||||||||||||||||| | |||||||||||||||| | ||   ||| |||  ||||||||| ||||||||||||||||||||||||||||| || || |
-------------------------------------------gtaattattactctttcaatttattattttctttcatgaatcttgcatcagcaatagttggtaatgccgtaatggtatat----tgcagTTTTTTGAGCATGGACTTGCATCCCAGAGAAGAGAATTAGCCAACAAACTTCTTGGTCATGTTCTGACACTTAGCCTTCAAATGTATGGTTGCCGTGTCA

upper sequence: Vv06s0004g05100.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G14530.1 (Glycine max), 3'ss of exon 4
gtatgaaattctcttttcgttgcatgattcttgcatgcgcgctatatgtgtgtgtatctgcacacattattattattattattatataattttaaatggttttacatttgcaac----tgtttctaattttcagTTTTTTGAGCATGGACTAGTATCCCAGAGAAGAGAACTGGCTGGCAAGCTTTATGGTCATGTACTGACACTTAGCCTTCAAATGTATGGTTGTCGAGTGA
                                                 ||    |||  | |     |||  | || |  || |  ||| ||  ||         || ||||     |  |  ||   | |||||||||||||||||||| | |||||||||||||||| | ||   ||| ||| |||| ||||| ||||||||||||||||||||||||||||| || || |
-------------------------------------------------gtaatcatc-actcttgcaatttattttttctttcttgaatcttgcatcaacagtagttggcaatgccataatggtataatgcagTTTTTTGAGCATGGACTTGCATCCCAGAGAAGAGAATTAGCCAACAAACTTCATGGGCATGTTCTGACACTTAGCCTTCAAATGTATGGTTGCCGTGTCA

upper sequence: Vv06s0004g05100.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA12G06450.3 (Glycine max), 3'ss of exon 4
gtatgaaattctcttttcgttgcatgattcttgcatgcgcgctatatgtgtgtgtatctgcacacattattattattattattatataattttaaatggttttacatttgcaa--ctgt--ttctaattttcagTTTTTTGAGCATGGACTAGTATCCCAGAGAAGAGAACTGGCTGGCAAGCTTTATGGTCATGTACTGACACTTAGCCTTCAAATGTATGGTTGTCGAGTGA
                                               ||     |  ||      |||  ||||||| |  ||    ||| ||   ||        || | ||  ||||  |  ||  || |||||||||||||||||||| | |||||||||||||||| | ||   ||| |||  ||| ||||| ||||||||||||||||||||||||||||| || || |
-----------------------------------------------gtaatcattactctttcaatt--tattattttctttcatgaatcttgcgtgagcaatagttggtaatgctgtaatggtatattgcagTTTTTTGAGCATGGACTTGCATCCCAGAGAAGAGAATTAGCCAACAAACTTCTTGGCCATGTTCTGACACTTAGCCTTCAAATGTATGGTTGCCGTGTCA

upper sequence: Vv06s0004g05100.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA15G04060.2 (Glycine max), 3'ss of exon 5
gtatgaaattctcttttcgttgcatgattcttgcatgcgcgctatatgtgtgtgtatctgcacacattattattattattattatataattttaaatggttttacatttgcaactgtttctaattttcagTTTTTTGAGCATGGACTAGTATCCCAGAGAAGAGAACTGGCTGGCAAGCTTTATGGTCATGTACTGACACTTAGCCTTCAAATGTATGGTTGTCGAGTGA
                        | ||  || |     | |||||| ||  | |   ||| || || ||| |  ||       |||   | |   | |  | ||| |||     || |||      |||||||||||||||||||| | |||||||||||||||  | ||   |||||||| ||  ||||| ||||| |||||||||||||||||||||||||| || |
-----------------------gtaatcattacccattctctatat-tgcctatgcatgctcaaatgattctcttt-------tatggatcttgttagcgtgacaattg-----gtatctgg----cagTTTTTTGAGCATGGACTTGCATCCCAGAGAAGAGAGTTAGCCAACAAGCTTTTTGAACATGTTCTGACGCTTAGCCTTCAAATGTATGGTTGTCGGGTCA

upper sequence: Vv06s0004g05100.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G14500.1 (Glycine max), 3'ss of exon 5
gtatgaaattctcttttcgttgcatgattcttgcatgcgcgctatatgtgtgtgtatctgcacacattattattattattattatataattttaaatggttttacatttgcaa--ctgt--ttctaattttcagTTTTTTGAGCATGGACTAGTATCCCAGAGAAGAGAACTGGCTGGCAAGCTTTATGGTCATGTACTGACACTTAGCCTTCAAATGTATGGTTGTCGAGTGA
                                               ||     |  ||   ||  | |||||| |  ||  |    ||| ||  |||        ||   ||  ||||  || ||  || |||||||||||||||||||| | |||||| ||||||||| | ||   ||| |||  ||| ||||| ||||||||||||||||||||||||||||| || || |
-----------------------------------------------gtaatcattactcttcaattaattattttctttcatg---aatcttgcatgagcaatagttgataatgctgtagttgtatattgcagTTTTTTGAGCATGGACTTGCATCCCAAAGAAGAGAATTAGCCAACAAACTTCTTGGCCATGTTCTGACACTTAGCCTTCAAATGTATGGTTGCCGTGTCA

upper sequence: Vv06s0004g05100.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA12G06430.1 (Glycine max), 3'ss of exon 3
gtatgaaattctcttttcgttgcatgattcttgcatgcgcgctatatgtgtgtgtatctgcacacattattattatt-attattatataattttaaatggttt-tacatttgcaactgtttctaattttcagTTTTTTGAGCATGGACTAGTATCCCAGAGAAGAGAACTGGCTGGCAAGCTTTATGGTCATGTACTGACACTTAGCCTTCAAATGTATGGTTGTCGAGTGA
                                            ||    |  || | |  |   |||||| |  || |||| | |   ||   |||| |||  ||     | ||  || | |    | |||||||||||||||||||| | |||||||| ||||||| | ||   ||| |||  ||| ||||| ||| ||||||||||||||||||||||||| || || |
-------------------------------------------gtaaccattagtctttaaattaattattttctttcattaatcttgcatgagaaatagttggtaatgccgtaatggtatat----tgcagTTTTTTGAGCATGGACTTGCATCCCAGAAAAGAGAATTAGCCAACAAACTTCTTGGCCATGTTCTGGCACTTAGCCTTCAAATGTATGGTTGCCGTGTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttattattatataattttaaatggttttacatttgcaactgtttctaattttcagTTTTTTGAGCATGGACTAGTATCCCAGAGAAGAGAACTGGCTGGCAAGCTTTATGGTCATGTACTGACACTTAGCCTTCAAATGTATGGTTGTCGAGTGA
                                          ttctaat  putative branch site (score: 2)
                                      ctgtttct  CT-rich tract
     attatataattttaaa  TA-rich tract