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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatcttcatttgcctaattattgaatttcaacatcttattattttactccaagttagtcagaacagttcattaaaatttaaattaacatgaatctgcagGAGTCTACATCTCTTAAAGACATCCCAGTTGTGATCATGTCCTCTGAGAATATCCCTTCTAGGATTAACAG

Basic information

species Vitis vinifera
transcript Vv13s0067g03450.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0067g03450.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os01g72330.1 (Oryza sativa), 3'ss of exon 3
------------------------gtatcttcatttgccta--attattgaatttcaacatcttattattttactccaagtt-agtcagaacagttcattaaaatttaaattaacatgaatctgcagGAGTCTACATCTCTTAAAGACATCCCAGTTGTGATCATGTCCTCTGAGAATATCCCTTCTAGGATTAACAG
                        | ||  | ||   |  |  |||  | ||| |     || | || ||   ||  ||||  ||| | |   |||| ||    | |  |||    ||    | ||||  ||  | ||  | || ||||| ||||||||||||||||| ||||||||| | ||| | ||||| |||||
gtaagtttttgtttgcagagaattgaattcttatcctctgagcattcataaatcttgg-gtccttttgtt--gctggaagtggagtaaaatttgttccttttgctgttcattt---tgggggtacagGGATCATCTTCATTGAAGGACATACCAGTTGTGATCATGTCTTCTGAGAATGTGCCTGCAAGGATCAACAG

upper sequence: Vv13s0067g03450.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G21650.1 (Glycine max), 3'ss of exon 3
gtatcttcatttgcctaat----tattgaatttcaacatcttattattttactccaagttagtcagaacagttcattaaaatttaaattaacatgaatctgcagGAGTCTACATCTCTTAAAGACATCCCAGTTGTGATCATGTCCTCTGAGAATATCCCTTCTAGGATTAACAG
 |     |||||   | ||    ||   |  |||||   ||| |   | | | |    ||  |   |  |    | ||| ||  || |||   |  || ||||||| |||| ||||||||||||||| ||||| ||||| |||||||| |||||| ||||  | |||||||||||
ctcaaaccatttttgtgatgtcataacaaccttcaattacttgtatatcttccctggtttgattttagaaaaataataacatg-aagtta---ttgatttgcagGAATCTAAATCTCTTAAAGACATACCAGTGGTGATTATGTCCTCAGAGAATGTCCCAGCAAGGATTAACAG

upper sequence: Vv13s0067g03450.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G26770.1 (Glycine max), 3'ss of exon 3
------gtatcttcatttgcctaattattgaatttcaacatcttat-tattttactccaagttagtcagaacagttcattaaaatttaaattaacatgaatctgcagGAGTCTACATCTCTTAAAGACATCCCAGTTGTGATCATGTCCTCTGAGAATATCCCTTCTAGGATTAACAG
       | |  ||||   | | || ||  |  ||  ||| | | | |||| | || |  | |  |    | |  | ||      |||| ||  | |  || ||||||| |||| |||||||||| |||| ||||||||||| |||||||| |||||| | || || ||||| |||||
aatcaaatttgctcatggccatcatgatatatctttgacaacctgtatattcttctgcttgatgatgttgaaaaataata-----ttaagtt--ctttgatttgcagGAATCTAAATCTCTTAAAAACATACCAGTTGTGATTATGTCCTCAGAGAATGTACCATCAAGGATCAACAG

upper sequence: Vv13s0067g03450.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA15G37770.1 (Glycine max), 3'ss of exon 3
------gtatcttcatttgcctaattattgaatttcaacatcttat-tattttactccaagttagtcagaacagttcattaaaatttaaattaacatgaatctgcagGAGTCTACATCTCTTAAAGACATCCCAGTTGTGATCATGTCCTCTGAGAATATCCCTTCTAGGATTAACAG
       | |  ||||   | | ||  |  |  ||  ||| | | | |||| | || |  | |  |   || |  | ||      |||| ||  | |  || ||||||| |||| |||||||||| |||| ||||||||||| |||||||| |||||| | || || ||||| |||||
aatcaaatttgatcatggccatcatggtatatctttgacagcctgtatattcttctgcttgatgatgttaaaaaataata-----ttaagtt--ccttgatttgcagGAATCTAAATCTCTTAAAAACATACCAGTTGTGATTATGTCCTCAGAGAATGTACCATCAAGGATCAACAG

upper sequence: Vv13s0067g03450.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA04G29250.1 (Glycine max), 3'ss of exon 3
----gtatcttcatttgcctaattattgaatttcaacatcttattattttactccaagttagtcagaacagttcattaaaatttaaattaacatgaatctgcagGAGTCTACATCTCTTAAAGACATCCCAGTTGTGATCATGTCCTCTGAGAATATCCCTTCTAGGATTAACAG
     |     |||||   | ||   || |||  ||| |   |||  ||   ||     | ||  ||   | |    |||    | |     ||  |  || |||| |||| ||||||||||||||| ||||| ||||| |||||||| |||||| ||||  | ||||| |||||
aactctcaaaccatttttgtgatg--tgcattgtaaccttcaattgcttgtatcttccctggtttgat--gctagaaaaataacagaaagttattgacttgtagGAATCTAAATCTCTTAAAGACATACCAGTGGTGATTATGTCCTCAGAGAATGTCCCAGCAAGGATCAACAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tactccaagttagtcagaacagttcattaaaatttaaattaacatgaatctgcagGAGTCTACATCTCTTAAAGACATCCCAGTTGTGATCATGTCCTCTGAGAATATCCCTTCTAGGATTAACAG
                                    aattaac  putative branch site (score: 2)
                    agttcattaaaattta  TA-rich tract