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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatataatcactcttctaccaacatttagttcagaattttgaaatctttgaagtcttccgaattaatatgctctgttcctttttttttgtttttttttcctgcagATGGGATACCCCAATTCATGTTGATGCAGCTAGTGGTGGATTCATTGCACCATTCCTTTATCCGGAACTGGAGTGGGACTTCCGCCTTCCATTGGTGAAG

Basic information

species Vitis vinifera
transcript Vv01s0011g06600.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0011g06600.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA14G39170.1 (Glycine max), 3'ss of exon 5
gtatataat-cactcttctaccaacatttag----ttcagaattttgaaatc---tttgaagtcttccgaattaatatgctctgttcctttttttttgtttttttttcctgcagATGGGATACCCCAATTCATGTTGATGCAGCTAGTGGTGGATTCATTGCACCATTCCTTTATCCGGAACTGGAGTGGGACTTCCGCCTTCCATTGGTGAAG
|| | || | |||   |  |   |   |||     |||  | |||   || |   ||| | ||  |   | |||    |   ||    |    | |    ||  ||    | |||||||| || ||||||||||| |||||||| |||||||||||||||||||| || || ||||| || || |||||||| || ||  | ||| | ||||||
gtttgtattgcacatattgattgagtcttaactgcttcctattttgtgaacctagtttaaggtactttaattta----gacttggaattgacatgtgaaattaattattggtagATGGGACACTCCAATTCATGTGGATGCAGCCAGTGGTGGATTCATTGCACCTTTTCTCTATCCTGAGCTTGAGTGGGATTTTCGGTTGCCACTAGTGAAG

upper sequence: Vv01s0011g06600.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G33280.1 (Glycine max), 3'ss of exon 2
-gtatataatcactcttctaccaacatttagttcagaattttgaaatctttgaagtcttccgaattaatatgctctgttcctttttttttgtttttttttcctgcagATGGGATACCCCAATTCATGTTGATGCAGCTAGTGGTGGATTCATTGCACCATTCCTTTATCCGGAACTGGAGTGGGACTTCCGCCTTCCATTGGTGAAG
 |  ||  |  | |  | |    | |||   || |||    ||||   || ||| | ||   || |  ||  |  | |   ||    | ||   || |||   | || ||||| || || ||||||||||||||||| |||||||| |||||||| ||||| ||||| || || || ||||||||||||||  | ||| | ||||||
agcctaagaagattagtatgtggatattatatt-aga----tgaagatttagaattattttaaaattttagaccttatgaattgacatgtgaaattgtttg--gtagGTGGGACACTCCTATTCATGTTGATGCAGCAAGTGGTGGCTTCATTGCCCCATTTCTTTACCCAGAGCTTGAGTGGGACTTCCGGTTACCACTAGTGAAG

upper sequence: Vv01s0011g06600.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G40840.1 (Glycine max), 3'ss of exon 4
---------gtatataatcact---cttctaccaacatttagttcagaattttgaaatctttgaagtcttccgaattaatatgctctgttcctttttttttgtttttttttcctgcagATGGGATACCCCAATTCATGTTGATGCAGCTAGTGGTGGATTCATTGCACCATTCCTTTATCCGGAACTGGAGTGGGACTTCCGCCTTCCATTGGTGAAG
         | | ||| | | |     | |||       || ||    |  |  |    ||| | || ||   | |||     ||  |        | |    ||  || |   | |||||||| || ||||||||||| ||||| || ||||| |||||||||||||| || |||||||| || || || |||||||| ||  | ||| | ||||||
gtttgtattgcacatattgattgagtctttactgcttcctattttgtgaactaaag---tttaaggtattttaatttag---acttggaattgacatgtgaaattaattattgggtagATGGGACACTCCAATTCATGTGGATGCTGCCAGTGGGGGATTCATTGCACCTTTTCTTTATCCAGAGCTTGAATGGGACTTTCGGTTGCCACTAGTGAAG

upper sequence: Vv01s0011g06600.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA18G04940.1 (Glycine max), 3'ss of exon 4
gtatataatcactcttctaccaacatttagttcagaattttgaaatctttgaagtcttccgaattaatatgctctgttcctttttttttgtttttttttcctgcagATGGGATACCCCAATTCATGTTGATGCAGCTAGTGGTGGATTCATTGCACCATTCCTTTATCCGGAACTGGAGTGGGACTTCCGCCTTCCATTGGTGAAG
 |  | ||  |    | || |   |   || | || || | || ||      |   ||  |||||| | ||     ||||     || ||  || |||    | || ||||| || || ||||||||||||||||| || ||||| ||||| || |||||  |||| || || || ||||||||||||||  | | | | ||||||
attaagaacaataaatttatcc-taagaagattagtatgtggatattaaatgaagatttagaattattttgaa--attccagagcttatgaattgtttg---gtagGTGGGACACTCCTATTCATGTTGATGCAGCCAGCGGTGGGTTCATAGCCCCATTTATTTACCCAGAGCTTGAGTGGGACTTCCGGTTACAACTAGTGAAG

upper sequence: Vv01s0011g06600.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ18071 (Selaginella moellendorffii), 3'ss of exon 4
gtatataatcactcttctaccaacatttagttcagaattttgaaatctttgaagtcttccgaattaatatgctctgttcctttttttttgtttttttttcctgcagATGGGATACCCCAATTCATGTTGATGCAGCTAGTGGTGGATTCATTGCACCATTCCTTTATCCGGAACTGGAGTGGGACTTCCGCCTTCCATTGGTGAAG
                                 | ||| |     ||| ||   || ||   |  ||        | |      || | ||||| ||  | |  ||||||||||| || || || |||||||| || ||||| |||||||| || |||||||| ||||| ||  |||||||||| || ||  | ||  | || |||
-------------------------------gtaaaatatc----tctctgtgttcgtcgagaaaaa--------gcttgaaacttatcgttttcttgcctt--agATGGGATACTCCTATCCACGTTGATGCTGCCAGTGGAGGATTCATCGCTCCATTCCTCTATCCAGATTTGGAGTGGGATTTTCGATTGCCTCTTGTCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagtcttccgaattaatatgctctgttcctttttttttgtttttttttcctgcagATGGGATACCCCAATTCATGTTGATGCAGCTAGTGGTGGATTCATTGCACCATTCCTTTATCCGGAACTGGAGTGGGACTTCCGCCTTCCATTGGTGAAG
          aattaat  putative branch site (score: 3)
                tatgctctgttccttt  CT-rich tract
                         ttcctttttttttgtt  TA-rich tract