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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtggatccttacatccttcaatttattatctattatgatagctatagcctacagcatgcttcaattttgatgtttatgaagtctgcatttgtgtattttctgtcctgatcatgtgatcattttctttgttttcattattattgttattttttttaacagGCAAATGTTTATCATGCCACAAAATCCGATGGTCACGAACTTGCAATTAAAGTGTACAAAACTTCTGTTCTAGTATTTAA

Basic information

species Vitis vinifera
transcript Vv17s0000g01390.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0000g01390.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G035098_T01 (Zea mays), 3'ss of exon 5
gtacgtggatccttacatccttcaatttattatctattatgatagctatagcctacagcatgcttcaattttgatgtttatgaagtctgcatttgtgtattttc--tgtcctgatcatgtgatcattttctttgttttcattattattgttattttttttaacagGCAAATGTTTATCATGCCACAAAATCCGATGGTCACGAACTTGCAATTAAAGTGTACAAAACTTCTGTTCTAGTATTTAA
                                                              ||    ||  |||| |  |  |      | ||    || ||   | |||| || | || || ||| |     |  |||  |||| | |||| | |     ||||||||||| |||||||| |||||  | ||||| || || |||||||||||||| |||||||| |||||||| || |||||
-------------------------------------------------------------actgagtttgagatgctccttgacctgctagttagagatctttattttcctaattaagt-ataattatgaacatgatcaa-attaatcttatctatg--ggcagGCAAATGTCTATCATGCAACAAAGACGGATGGCCAGGAGCTTGCAATTAAAGTCTACAAAACCTCTGTTCTTGTTTTTAA

upper sequence: Vv17s0000g01390.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G120329_T01 (Zea mays), 3'ss of exon 3
gtacgtggatccttacatccttcaatttattatctattatgatagctatagcctacagcatgcttcaattttgatgtttatgaagtctgcatttgtgtattttc--tgtcctgatcatgtgatcattttctttgttttcattattattgttattttttttaacagGCAAATGTTTATCATGCCACAAAATCCGATGGTCACGAACTTGCAATTAAAGTGTACAAAACTTCTGTTCTAGTATTTAA
                                                            ||  ||  ||  |||| |  |  |      | ||    || ||   | |||| || | || || ||| |     |  |||  |||| |  ||| | |     ||||||||||| |||||||| |||||  | ||||| || || |||||||||||||| |||||||| ||||| || || |||||
------------------------------------------------------------tgagtct-ttgagatgctccttgacctgctagttagagatctttattttcctaattaagt-ataattatgaacatggtcaa-attaatcctatctatg--ggcagGCAAATGTCTATCATGCAACAAAGACGGATGGCCAGGAGCTTGCAATTAAAGTCTACAAAACCTCTGTCCTTGTTTTTAA

upper sequence: Vv17s0000g01390.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA18G46440.1 (Glycine max), 3'ss of exon 3
gtacgtggatccttacatccttcaatttattatctattatgatagctatagcctaca-gcatgcttcaattttgatgtttatgaagtctgcatttgtgtattttctgtcctgatcatgtgatcattttctttgttttcattattattgttattttttttaacagGCAAATGTTTATCATGCCACAAAATCCGATGGTCACGAACTTGCAATTAAAGTGTACAAAACTTCTGTTCTAGTATTTAA
                         | | | ||| |   ||| |||| | |  |||  |  || ||   || ||||| | |    || || ||    | | | | |||  | |||| |  | ||  || | |||||      ||| |||  | |||| ||||||||||||||||||||||| || ||||| |||||||| ||||||||||||||||| |||||||| |||||| | ||||| ||
------------------------gtatgtgatccacc-tga-agcttttgtttacctgtttgttt---ttatgatgatgacatggtttggatcatcg-actatatgtgat-atcaagacaccacatt-tctgtttc-----ttactgtgttgttttctaacagGCAAATGTTTATCATGCAACTAAATCTGATGGTCAAGAACTTGCAATTAAAGTATACAAAACATCTGTTTTGGTATTCAA

upper sequence: Vv17s0000g01390.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA09G39750.1 (Glycine max), 3'ss of exon 3
gtacgtggatccttacatccttcaatttattatctattatgatagctatagcctaca-gcatgcttcaattttgatgtttatgaagtctgcatttgtgtattttctgtcctgatcatgtgatcattttctttgttttcattattattgttattttttttaacagGCAAATGTTTATCATGCCACAAAATCCGATGGTCACGAACTTGCAATTAAAGTGTACAAAACTTCTGTTCTAGTATTTAA
                         | | | ||  | | ||| |||| | |  |||  |  || ||   || ||||| | |    || || ||    | | | | |||  | |||| |  | ||  ||     || | | | || |||||     || ||||||||||||||||||||||| || ||||| |||  ||| ||||||||||||||||| |||||||| |||||||| ||||||||
------------------------gtatgtgatacact-tga-agcttttgtttacctgtttgttt---ttatgatgatgacatggtttggatcatcg-actatatgtgat-atcaagacaccacatttccgtttcttact-ttgttgtt-----ttctaacagGCAAATGTTTATCATGCAACTAAATCTGATACTCAAGAACTTGCAATTAAAGTATACAAAACATCTGTTCTGGTATTTAA

upper sequence: Vv17s0000g01390.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G37350.1 (Arabidopsis thaliana), 3'ss of exon 3
gtacgtggatccttacatccttcaatttattatctattatgatagctatagcctacagcatgcttcaattttgatgtttatgaagtctgcatttgtgtattttctgtcctgatcatgtgatcattttctttgttttcattattattgttattttttttaacagGCAAATGTTTATCATGCCACAAAATCCGATGGTCACGAACTTGCAATTAAAGTGTACAAAACTTCTGTTCTAGTATTTAA
                                                  |  |    |||    ||| | | || |||  ||       || ||| | | |||| |  || | |    | || | |||||         ||||||||  ||        ||||||||||||||||||||||||||||| || |||   ||||||||||| ||||||||||| || |||||||| || || ||
--------------------------------------------------gtatgatacatttcacaactctcatatttgagat-----tatctgtttttattcttttttgttga---aagcactctcttta--------attattgtcttt--------cagGCAAATGTTTATCATGCCACAAAATCTGACGGTTCGGAACTTGCAATAAAAGTGTACAAGACATCTGTTCTGGTTTTCAA

upper sequence: Vv17s0000g01390.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT2G24990.1 (Arabidopsis thaliana), 3'ss of exon 3
gtacgtggatccttacatccttcaatttattatctattatgatagctatagcctacagcatgcttcaattttgatgtttatgaagtctgcatttgtgtattttctgtcctgatcatgtgatcat-tttctttgttttcattattat-tgttattttttttaacagGCAAATGTTTATCATGCCACAAAATCCGATGGTCACGAACTTGCAATTAAAGTGTACAAAACTTCTGTTCTAGTATTTAA
                                                         | |||   || |    |   | ||      ||  || |    ||         ||| || || |    || |||||||   | || | | | ||||| |||||  ||||| ||||||||||||||||||||||| || |||   ||||||||||| ||||||||||| || |||||||| || |||||
---------------------------------------------------------gtatgtcacattcactactctcatatttgatggtttagctatttagtcaagaagatgatctgtttggattcctttgttgaaagtactctcttttattgttttt--cagGCTAATGTTTATCATGCCACAAAATCTGACGGTTCGGAACTTGCAATAAAAGTGTACAAGACATCTGTTCTGGTTTTTAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgatcatgtgatcattttctttgttttcattattattgttattttttttaacagGCAAATGTTTATCATGCCACAAAATCCGATGGTCACGAACTTGCAATTAAAGTGTACAAAACTTCTGTTCTAGTATTTAA
 tcctgat  putative branch site (score: 3)
                                    ttgttatttttttt  putative PPT
              attttctttgttttca  TA-rich tract