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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggctttgcctgctcctactcatgtagctgtctgaattaatacttcttgcctcttatagaattggttttgtttgtgcagCTCGGAAGGATATGCCTTGATATCCTGAAAGACAAATGGAGCCCTGCTCTCCAGATTCGAACCGTACTCTTGAG

Basic information

species Vitis vinifera
transcript Vv19s0014g01460.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0014g01460.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g48280.1 (Oryza sativa), 3'ss of exon 5
gtaggctttgcctgctcctactcatgtagctgtctgaattaatacttcttgcctcttatagaattggttttgtttgtgcagCTCGGAAGGATATGCCTTGATATCCTGAAAGACAAATGGAGCCCTGCTCTCCAGATTCGAACCGTACTCTTGAG
||  ||  | |    ||||  |  | ||  |   | | ||  || | | |   |  |  |  | | | |||  || || |||| || |||||||||||||| || || || |||||||||||||| || || |||||||| || || || |||||
gtttgcagt-cacattcctctttgt-tatttagtttacttcgtaatacattgtttattcattaataggtttacttttgtagCTTGGTAGGATATGCCTTGACATTCTCAAGGACAAATGGAGCCCAGCCCTTCAGATTCGGACAGTTCTTTTGAG

upper sequence: Vv19s0014g01460.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G115828_T04 (Zea mays), 3'ss of exon 2
gtaggctttgcctgctcctactcatgtagctgtctgaattaatacttcttgcctcttatagaattggttttgtttgtgcagCTCGGAAGGATATGCCTTGATATCCTGAAAGACAAATGGAGCCCTGCTCTCCAGATTCGAACCGTACTCTTGAG
|||||| | || |  ||||  |  |   ||    | | ||  ||    | |    | |    |  |  ||   |  ||||||| || ||||||||||| || || || || |||||||||||||| || || ||||||||||| || || |||||
gtaggcat-gcatattcct--ttgtagtgccagtttatttcttatgaatggttattcagtccag-gacttcactgttgcagCTTGGTAGGATATGCCTCGACATTCTCAAGGACAAATGGAGCCCAGCACTTCAGATTCGAACAGTTCTTTTGAG

upper sequence: Vv19s0014g01460.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: EFJ06742 (Selaginella moellendorffii), 3'ss of exon 4
gtaggctttgcctgctcctactcatgtagctgtctgaattaatacttcttgcctcttatagaattggttttgtttgtgcagCTCGGAAGGATATGCCTTGATATCCTGAAAGACAAATGGAGCCCTGCTCTCCAGATTCGAACCGTACTCTTGAG
                               ||  || | | | || |       || |    ||     ||| | ||||||| ||  |||| ||  | || ||  ||||||||||||||||||| ||||| |||||||| || || ||||||||
-------------------------------gtgggactcactgctacgcttgcgtt-tgttcttaacactgtctttgcagCTGGGCCGGATCTGTTTAGACATTTTGAAAGACAAATGGAGCCCCGCTCTTCAGATTCGCACTGTGCTCTTGAG

upper sequence: Vv19s0014g01460.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: EFJ16885 (Selaginella moellendorffii), 3'ss of exon 5
gtaggctttgcctgctcctactcatgtagctgtctgaattaatacttcttgcctcttatagaattggttttgtttgtgcagCTCGGAAGGATATGCCTTGATATCCTGAAAGACAAATGGAGCCCTGCTCTCCAGATTCGAACCGTACTCTTGAG
                               ||  || | | | || |       || |    ||      || | ||||||| ||  |||| ||  | || ||  ||||||||||||||||||| ||||| |||||||| || || ||||||||
-------------------------------gtgggactcactgctacgcttgcgtt-tgttcttaacaccgtctttgcagCTGGGCCGGATCTGTTTAGACATTTTGAAAGACAAATGGAGCCCCGCTCTTCAGATTCGCACTGTGCTCTTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagctgtctgaattaatacttcttgcctcttatagaattggttttgtttgtgcagCTCGGAAGGATATGCCTTGATATCCTGAAAGACAAATGGAGCCCTGCTCTCCAGATTCGAACCGTACTCTTGAG
          aattaat  putative branch site (score: 3)
                                         ttttgttt  putative PPT
          aattaatacttctt  TA-rich tract