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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatccttttcctttgcattttatttatttgtatttaaatatttttcatccttttagatgatgttgctagttgtttttgcgaaggtgtatgttttgaatgaccttacatctcagcaattagGCACCTTGAAGAAAATTTGGATGATTGGTTAACAGATGAATTGGATAATTACTTGGATGATGACTATTTGGTGTTTGACTGCCCAG

Basic information

species Vitis vinifera
transcript Vv00s0174g00200.t01
intron # 3
splice site 3'
intron type U12 (go to U12 genes for details)

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s0174g00200.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os03g21914.1 (Oryza sativa), 3'ss of exon 3
gtatccttttcctttgcattttatttatttgtatttaaatatttttcatccttttagatgatgttgctagttgtttttgcgaaggtgtatgttttgaatgaccttacatctcagcaattagGCACCTTGAAGAAAATTTGGATGATTGGTTAACAGATGAATTGGATAATTACTTGGATGATGACTATTTGGTGTTTGACTGCCCAG
          |||| | |||    | || |  || |||| |   |      || | | |    ||  ||     |||        | |||| | | | |        |    | | || |||||||||||||| |||||||||||||||||    ||  || |||||  ||| ||||||||||||||| | |||||||| |||||||
----------ccttggtattaatatcatgtcaatctaaagaggatg-----ttatgggtatatttttta-----tttaataggattttatgctgtcagttgttccttaagaaaaccat-agGCACCTTGAAGACAATTTGGATGATTGGTTGGATGAGCAACTGGATGGTTATTTGGATGATGACTATCTTGTGTTTGATTGCCCAG

upper sequence: Vv00s0174g00200.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os03g50620.2 (Oryza sativa), 3'ss of exon 3
gtatccttttcctttgcattttatttatttgtatttaaatatttttcatccttttagatgatgttgctagttgtttttgcgaaggtgt-atgttttgaatgaccttacatctcagcaattagGCACCTTGAAGAAAATTTGGATGATTGGTTAACAGATGAATTGGATAATTACTTGGATGATGACTATTTGGTGTTTGACTGCCCAG
                   |  |    || |||||   ||||  |   ||      ||   |  || || |  | |||   | | | | ||| | | | |        |    | | || |||||||||||||| |||||||||||||||||    ||  || ||||   ||| ||||||||||||||| | |||||||| |||||||
------------------ataaaacccttggtatt---atatcatgtctctgagaggacatttatggtaatattatttaataggattttatgctgtcagttgttccttaagaaaaccat-agGCACCTTGAAGACAATTTGGATGATTGGTTGGATGAGCAACTGGAGGGTTATTTGGATGATGACTATCTTGTGTTTGATTGCCCAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctagttgtttttgcgaaggtgtatgttttgaatgaccttacatctcagcaattagGCACCTTGAAGAAAATTTGGATGATTGGTTAACAGATGAATTGGATAATTACTTGGATGATGACTATTTGGTGTTTGACTGCCCAG
 gaccttaca  putative branch site 
                     tatgtttt  TA-rich tract