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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagggtttggctcctttgtgtacaagtgctcttttattgggctaggattaaaagcttccttcatatgaattctgtataggttttcatattacttcagcttcacttgttatattattgctgaaaattaaagttaaactctcatctaatctttttatgtttgttgttctgaagCATGTATACATTCCATTACTATTTTTCAGTGGAGTGGACTATATTGATGCTCCTACACCATATATGATGGGTCTCCATTCAGGTGTTGACACTTCTAATC

Basic information

species Vitis vinifera
transcript Vv17s0000g03950.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0000g03950.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os01g39380.2 (Oryza sativa), 3'ss of exon 6
-----------gtagggtttggctcctttgtgtac-aagtgctctttta--ttgggctaggattaaaagcttccttcatatgaatt-----ctgtataggttttcatattacttc-----agcttcacttgttatattattgctgaaaattaaagttaaactctcatctaatctttttatgtttgttgttctgaagCATGTATACATTCCATTACTATTTTTCAGTGGAGTGGACTATATTGATGCTCCTACACCATATATGATGGGTCTCCATTCAGGTGTTGACACTTCTAATC
             |   |||| |   |||   ||| ||||  |     |  ||   | |  ||   |     |  |      || |     ||  | ||   ||  ||||  |||     ||   |  |||||     ||| ||  |        | |     | |  || ||      | || ||  | ||| ||||||| ||||| ||| || | || |  ||||| || || || || |||||||| ||||| || |||||||| || ||||||||||||||||| || |   
gtaggtttgattcaaaatttgtccttttttactactaagtttttccgcagttttcacaaatatgtcagatgacaattgctgaaacttgcaactaaagagtcatttgtatttgttcccataagtccccattgttgctacattactacattacctgatcatggagtgaattactcccaaattattcgtcatgctgcagCATGTCTACATCCCAATAATTTTCTCTAGTGGGGTTGATTACATAGATGCTCCAACACCCTACATGATGGGACTTCATTCAGGTGTTGACACATCCACAG

upper sequence: Vv17s0000g03950.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA08G04510.1 (Glycine max), 3'ss of exon 6
gtagggtttggctcctttgtgtacaagtgctcttttattgggctaggattaaaagcttccttcatatgaattctgtataggttttcatattacttcagcttcacttgttatattattgctgaaaattaaagttaaactctcatctaatctttttatgtttgttgttctgaagCATGTATACATTCCATTACTATTTTTCAGTGGAGTGGACTATATTGATGCTCCTACACCATATATGATGGGTCTCCATTCAGGTGTTGACACTTCTAATC
                                                                 || | |||| |    | |||| ||  |  ||| || |  |||||   | | | || |    |     |      |       ||||||| | |||| | |  | ||||||||||||||||| || || |||||||||||||| || |||||||||||||||||||||||||||||||| ||| |||| |||||||| ||||||  ||
----------------------------------------------------------------aataacttctcttgctgatttc-tagaatatcaactccttttgttgactcacttctaatccctttttctgggtcttt------tctttttgt-tttgctttcatcaagCATGTATACATTCCGTTGCTGTTTTTCAGTGGAGTAGATTATATTGATGCTCCTACACCATATATGATGGGACTCTATTCGGGTGTTGATACTTCTGCTC

upper sequence: Vv17s0000g03950.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT1G49040.1 (Arabidopsis thaliana), 3'ss of exon 6
gtagggtttggctcctttgtgtacaagtgctcttttattgggctaggattaaaagcttccttcatatgaattc-tgtataggttttcatattacttcagcttcacttgttatattattgctgaaaattaaagttaaactctcatctaatctttttatgtttgttgttctgaagCATGTATACATTCCATTACTATTTTTCAGTGGAGTGGACTATATTGATGCTCCTACACCATATATGATGGGTCTCCATTCAGGTGTTGACACTTCTAATC
                 | |||   ||  | ||  |   |  ||  | |||  |  |      ||||||| || | | || |  | |  |    | ||  |  |||   || | |||| ||           |  ||   | ||    | ||||  ||| ||||  ||||||||| || |||||||||||||||||||| |||||||| ||||| |||||||| || ||||||||||||||||||||||| || | ||| || || || ||||
----------------gtatgtcatagaacactgatga-gatctcagtttatcacttaaacaaatatgaactcatttgtaagcatgctaacccatgcatttctactgactaaaatatttct-----------tctaatctttattatttgttttgttgtatgtt--tctgaagCAAGTCTACATTCCATTACTATTTTTTAGTGGAGTAGACTACATTGATGCACCAACACCATATATGATGGGTCTCCACTCTGATGTCGATACATCCAATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctgaaaattaaagttaaactctcatctaatctttttatgtttgttgttctgaagCATGTATACATTCCATTACTATTTTTCAGTGGAGTGGACTATATTGATGCTCCTACACCATATATGATGGGTCTCCATTCAGGTGTTGACACTTCTAATC
                        atctaat  putative branch site (score: 3)
                                            ttgttct  putative PPT
     aaattaaagttaaact  TA-rich tract