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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggactaatatatgggtttactgtttgttacttgtcaaattttattttttgtttttgtttgaggtctcgttctttcccttatgggagtgacggttttgatacagattgttatcttttcagGAAACAACCATGTCTAATGCTTGGTACGAGGTTTTGTCGGTTTTGCACTTGATGGCAATGCTATTGTTATCACAGGCAAACTTACTGCTTCTTCCACGAA

Basic information

species Vitis vinifera
transcript Vv16s0039g00390.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0039g00390.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA20G35900.1 (Glycine max), 3'ss of exon 5
gtgggac-taatatatgggtttactgtttgttacttgtcaaattttattttttgtttttgtttgaggtctcgttctttcccttatgggagtgacggttt--------------tgatacagattgttatcttttcagGAAACAACCATGTCTAATGCTTGGTACGAGGTTTTGTCGGTTTTGCACTTGATGGCAATGCTATTGTTATCACAGGCAAACTTACTGCTTCTTCCACGAA
||    | || ||| |   |  ||   ||  | | |||   |||| | | ||| ||||| |   |      | |  |    || ||   |    | |||              || | || | ||  || ||| ||||||||||||||||||||||||||||| || || ||||||||||||||||||||||||||||||||| | |||||| |  | ||| | ||||||||  |||
gtaattcctattattttaatgcacatgtttatgcctgt---atttgaatgtttatttttatacaaaagaatgctgatcattttctgtctgctctgctttctttttttgtttgttggtgca-actgacatttttacagGAAACAACCATGTCTAATGCTTGGTATGAAGTGTTGTCGGTTTTGCACTTGATGGCAATGCTATTGCTGTCACAGTCTGATTTATTACTTCTTCCTAGAA

upper sequence: Vv16s0039g00390.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA09G29110.1 (Glycine max), 3'ss of exon 5
-----------------gtgggactaatatatgggtttactgtttgt-tacttgtcaaattttattttttgtttttgtttgaggtctcgttctttcccttatgggagtgacggttttgatacagattgttatcttttcagGAAACAACCATGTCTAATGCTTGGTACGAGGTTTTGTCGGTTTTGCACTTGATGGCAATGCTATTGTTATCACAGGCAAACTTACTGCTTCTTCCACGAA
                  |   |   ||| |||  | |    ||  | |    || |  || |||  |      |  |      | |  | |     |||    || | |  || | |  |    | |   ||||  ||||||||||||||||||||||||||||| ||||| ||||| |||||||| ||||||||||||||||   |||||||||| |||||  | || |||||| || 
gtaatcagattttctttttaaaatccatacatgtttctggatttgatgtgaaagttactttctatcctgaagaatgctgattaatttgttcccacaacttccatgatttatcgtat-gccatgattggcactcttcacagGAAACAACCATGTCTAATGCTTGGTATGAGGTGTTGTCAGTTTTGCATTTGATGGCAATGCTATCACTATCACAGGCTAACTTGTTACTGCTTCCAAGAT

upper sequence: Vv16s0039g00390.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA16G33650.1 (Glycine max), 3'ss of exon 3
-----------------gtgggactaatatatgggtttactgtttgttacttgtcaaattttattttttgtttttgtttgaggtctcgttctttccc-ttatgggagtgacggttttgatacag--attgtta-tcttttcagGAAACAACCATGTCTAATGCTTGGTACGAGGTTTTGTCGGTTTTGCACTTGATGGCAATGCTATTGTTATCACAGGCAAACTTACTGCTTCTTCCACGAA
                  |       ||| |||   || |||  | | || ||  || ||   || | | ||   |  ||  |  |  ||  |||||  ||      ||     ||  || | |  ||||  | ||||  ||||||||||||||||||||||||||||| ||||| ||||| |||||||| ||||||||||||||||   |||||||||| |||||  | ||  ||||| || 
gtaatcaggttttctatttaaagtccatacatg---tttctgaatttgacgtgg-aagttactttctatattgaagaatgctgattaatttgttcccactacttccatgctttattgtatgctgttattggcactcttcacagGAAACAACCATGTCTAATGCTTGGTATGAGGTGTTGTCAGTTTTGCATTTGATGGCAATGCTATCACTATCACAGGCTAACTTGTTACTGTTTCCAAGAT

upper sequence: Vv16s0039g00390.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA10G31710.1 (Glycine max), 3'ss of exon 5
gtgggactaatatatgggtttactgtttgttacttgtcaaattttattttttgtttttgtttgaggtctcgttctttcccttatgggagtgacggttttgatacagattgttatcttttcagGAAACAACCATGTCTAATGCTTGGTACGAGGTTTTGTCGGTTTTGCACTTGATGGCAATGCTATTGTTATCACAGGCAAACTTACTGCTTCTTCCACGAA
       ||||   |   |||    |     || | ||   ||| ||||    | | | |||    |||  |    |  ||| |    ||     | ||| | | || ||  || ||| ||||||||||||||||||||||| ||||| || || ||||| ||||||||||||||||||||||||||  | |||||||| || ||| | ||||||||  |||
------gtaattcctatttttttaatgcac-acatttcggctttgatttgaattatctattttctctctgctctgctttctttttttggtt----tgttggtgc-gactgacatttttacagGAAACAACCATGTCTAATGCCTGGTATGAAGTATTGTCAGTTTTGCACTTGATGGCAATGCTATTACTGTCACAGGCTAATTTATTACTTCTTCCCAGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcgttctttcccttatgggagtgacggttttgatacagattgttatcttttcagGAAACAACCATGTCTAATGCTTGGTACGAGGTTTTGTCGGTTTTGCACTTGATGGCAATGCTATTGTTATCACAGGCAAACTTACTGCTTCTTCCACGAA
                            ttttgat  putative branch site (score: 4)
                                           ttatcttttc  putative PPT
                                           ttatctttt  TA-rich tract