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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttatcatcaaattgaattatttcttctattggatctgctccttaatttttgcaactagtgttacatccatgaacacctgtttcttgcagGTGCCAATCTTCTTATAAATAATGAGGGAATTTTAAAGCTTGCTGATTTTGGACTTGCACGGTCATTTTCCAGTGACCATAATGGAAATCTTACAAATCG

Basic information

species Vitis vinifera
transcript Vv07s0141g00280.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0141g00280.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os01g72790.1 (Oryza sativa), 3'ss of exon 6
------gttatcatcaaattgaattatttcttctattggatctgctccttaatttttgcaactagtgttacatccatgaacacctgtttcttgcagGTGCCAATCTTCTTATAAATAATGAGGGAATTTTAAAGCTTGCTGATTTTGGACTTGCACGGTCATTTTCCAGTGACCATAATGGAAATCTTACAAATCG
        | |    | ||    ||  ||| |   |      ||    | | ||||| |  ||    | | ||     | |   | |||||||||||  | || ||  | ||| | |||||||| |  || ||||||||||||||||| |||||| | ||||| || |||||||| ||||||||  | ||||| ||
gttccttctttagagatatcttgtttgttcctacttcttgcatgtatatcagttttttcc-ctgaactaatatgttgtatccgttctttcttgcagGATCTAACCTCTTGATAGACAATGAGGGTAACTTGAAGCTTGCTGATTTTGGCCTTGCAAGATCATTCTCAAGTGACCACAATGGAAACTTAACAAACCG

upper sequence: Vv07s0141g00280.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G028452_T02 (Zea mays), 3'ss of exon 5
---------gttatcatcaaattgaattatttcttctattggatctgctccttaatttttgcaactagtgttacat-ccatgaacacctgtttcttgcagGTGCCAATCTTCTTATAAATAATGAGGGAATTTTAAAGCTTGCTGATTTTGGACTTGCACGGTCATTTTCCAGTGACCATAATGGAAATCTTACAAATCG
         ||   ||||         | || ||| | ||   | | |   ||| || ||     |    | ||||    |         ||| ||| |||  | || ||  | ||| |||| ||||| |  |||||||||||||||||||| |||||| | ||||| ||||| || || |||||||| ||||| || ||
gtattagctgtgcacatctctgctgggttttccttgttttccttattcattttatttgttcttgttgagctaacatattgtatttgatactttgttgtagGATCTAACCTCTTGATAGATAACGAGGGTAACTTAAAGCTTGCTGATTTTGGCCTTGCAAGATCATTCTCCAGCGATCACAATGGAAACCTTACCAACCG

upper sequence: Vv07s0141g00280.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT5G10270.1 (Arabidopsis thaliana), 3'ss of exon 6
gttatcatcaaattgaattatttcttctattggatctgctccttaatttttgcaactagtgttacatccatgaacacctgtttcttg---cagGTGCCAATCTTCTTATAAATAATGAGGGAATTTTAAAGCTTGCTGATTTTGGACTTGCACGGTCATTTTCCAGTGACCATAATGGAAATCTTACAAATCG
                 | ||||    ||    ||    |  | |  ||| |  |  |   |||| | |||    ||||   | |||   ||||  | ||||| |||||  | |||||||||| ||||||||| ||||||||||| ||||||||||| | |||   ||| |||| ||||||||||||||||||
----------------gtgattttcctta----atacaatgttgatgtttggttatcacctttacttgcatattaacctagattttgatccagGCTCAAATCTCCTTATCGACAATGAGGGAAATTTAAAGCTGGCTGATTTTGGGCTTGCACGGTCGTATTCTCATGATCATACTGGAAATCTTACAAATCG

upper sequence: Vv07s0141g00280.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: PP1S121_162V6.1 (Physcomitrella patens), 3'ss of exon 5
-----------------------------------------------gttatcatcaaattgaattatttcttctattggatctgctccttaatttttgcaactagtgttacatccatgaacacctgtttcttgcagGTGCCAATCTTCTTATAAATAATGAGGGAATTTTAAAGCTTGCTGATTTTGGACTTGCACGGTCATTTTCCAGTGACCATAATGGAAATC---TTACAAATCG
                                                | |   ||   ||| |||| | |||   || |||||      | || | |  | ||| |  |  ||      | | || ||| |  ||||| | |||||||||||  | ||  | |||||||| ||||||||||||||||| |||||| |||| ||||| | ||| || |||||  | |   | |||||   
gtaagttgtacggtttttcagctgaaccagctttccattgattaggaataacagtccttttgtattaat-cttggtttagatctatcaagtcatatct-tacctacttgtggattttctgatatctcttttt--cagGTTCAAATCTTCTTATCGACAACAATGGAATTTTGAAGCTTGCTGATTTTGGGCTTGCAAGGTCGTTTTCTAATGATCAGAATGGTCAACCACTGACAAA---


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgctccttaatttttgcaactagtgttacatccatgaacacctgtttcttgcagGTGCCAATCTTCTTATAAATAATGAGGGAATTTTAAAGCTTGCTGATTTTGGACTTGCACGGTCATTTTCCAGTGACCATAATGGAAATCTTACAAATCG
     ccttaat  putative branch site (score: 4)
                                         cctgtttctt  putative PPT
       ttaattttt  TA-rich tract