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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttcagaaccagacgagttttcaataaaatcatttttgatatactatttgcctcgatggcaaacctttttttatattttgtgttttgacatattttttttcctccttggtggtggttttcagAGATCTCAAGTCAATCACAGGTAGAGAGGTGGGTTGCTACATGATCTCGTGCAAGGATTCCGTGAACATAGACCTTGTAATTGATTGGCTTATCAAACAC

Basic information

species Vitis vinifera
transcript Vv14s0006g01090.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0006g01090.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os02g49980.1 (Oryza sativa), 3'ss of exon 5
gtgagttcagaaccagacgagttttcaataaaatcatttttgatatactatttgcctcgatggcaaacctttttttatattttgtgttttgacatattttttttcctccttggtggtggttttcagAGATCTCAAGTCAATCACAGGTAGAGAGGTGGGTTGCTACATGATCTCGTGCAAGGATTCCGTGAACATAGACCTTGTAATTGATTGGCTTATCAAACAC
                  |||||| | |     ||  | |     |   ||   | |   |||| ||  ||  |  ||  | | |    |||  |  | ||| ||           ||  ||||||||  ||  | |  || |  |   | || ||  | |||||||||||||| |||||||| || || ||||||||  |||| ||||||||||||||||| |||
----------------gtgagtttactaccttttctgtgtgagcttgtcatc--cttgagtggctaa--ttactgaatgatgtttcaactgaagtggtctttctc----------atgtatttcagAGGCCTGGAATTGATAAAGGACCGGGAAGTTTGCTGCTACATGATCTCTTGCAAGGACTCTGTAAACATAGATGTTGTCATTGATTGGCTTATCAAGCAC

upper sequence: Vv14s0006g01090.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G171060_T02 (Zea mays), 3'ss of exon 6
gtgagttcagaaccagacgagttttcaataaaatcatttttgatatactatttgcctcgatggcaaacctttttttatattttgtgttttgacatattttttttcctccttggtggtggttttcagAGATCTCAAGTCAATCACAGGTAGAGAGGTGGGTTGCTACATGATCTCGTGCAAGGATTCCGTGAACATAGACCTTGTAATTGATTGGCTTATCAAACAC
                            |||  |||   || || | ||   |  |   ||   |      ||| |  ||  | | |     ||   | | |   ||| |   |  | |||||||| |  ||  | |  || |  |   | |||||  ||||||||||||||||||| |||||||| |||||||||||| | || || || ||||||||||| |||
---------------------------gtaagctcaaccttcatttgcttact--cataattata-----ctttctgcatgatatctcagctcaagctctctgctctcttccctttttgttttcagTGGACTGGAATTGATAAAGGACCGGGAGGTTTGTTGCTACATGATCTCGTGTAAGGATTCTGTGAACATAGACGTCGTCATCGACTGGCTTATCAAGCAC

upper sequence: Vv14s0006g01090.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G089454_T03 (Zea mays), 3'ss of exon 4
gtgagttcagaaccagacgagttttcaataaaatcatttttgatatactatttgcctcgatggcaaacctttttttatattttgtgttttgacatattttttttcctccttggtggtggttttcagAGATCTCAAGTCAATCACAGGTAGAGAGGTGGGTTGCTACATGATCTCGTGCAAGGATTCCGTGAACATAGACCTTGTAATTGATTGGCTTATCAAACAC
                            | |  ||| | ||        ||||||||      ||  |   ||| |  ||| |   ||  |    |  | ||||     ||     | |||||||| |  ||  | || || |  |   | || ||  |||||||||||||||| || |||||||| |||||||||||| |||| || || ||||||||||| |||
---------------------------gtgagctcaatctt-------catttgcctacgcatcattctactttctgcattata-attcagctgaagctcttttgactttt-----ttgttttcagTGGACTGGAATCGATAAAGGACCGCGAAGTTTGTTGCTACATGATCTCCTGTAAGGATTCTGTGAACATAGACATTGTCATCGACTGGCTTATCAAGCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttatattttgtgttttgacatattttttttcctccttggtggtggttttcagAGATCTCAAGTCAATCACAGGTAGAGAGGTGGGTTGCTACATGATCTCGTGCAAGGATTCCGTGAACATAGACCTTGTAATTGATTGGCTTATCAAACAC
               ttttgac  putative branch site (score: 3)
                                                ttttc  putative PPT
     atattttgtgttttga  TA-rich tract