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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtaggatctcatctcgtggtcttgtcctgaatcatgatttttcactgttgaataaaagattctgatattccttcaagttttagattctcattttggatcaatttttatttatttatttattttttgtttgcagGTGGGTATGATAAGGAAGAGAAGGCAGCTAGAGCTTATGATCTCGCCGCTCTTAAGTACTGGGGTCCGACCACCACCACTAACTTCCCT

Basic information

species Vitis vinifera
transcript Vv11s0052g00840.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0052g00840.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os04g55970.2 (Oryza sativa), 3'ss of exon 3
gtgagtaggatctcatctcgtggtcttgtcctgaatcatgatttttcactgttgaataaaagattctgatattccttcaagt--tttagattctcattttggatcaatttttatttatttatttattttttg--tttgcagGTGGGTATGATAAGGAAGAGAAGGCAGCTAGAGCTTATGATCTCGCCGCTCTTAAGTACTGGGGTCCGACCACCACCACTAACTTCCCT
                                      ||       |||    | ||  ||   ||  | |  |||    |  ||| ||    ||||||      | |  |    |    ||| ||   ||  ||| ||||||| ||||||||||| ||||| || || || || |||||||| |||||  | |||||||||||||| | |||||| || ||||| || 
-------------------------------------ttggccagctactagctagtagtagcagctattgtaactttgcatcgtttggaa---cattttaaggtgaatgatgcagaga-gtttgttcgatgattttacagGTGGCTATGATAAGGAGGAGAAAGCGGCGAGGGCGTATGATCTTGCCGCGTTGAAGTACTGGGGTCCTAGCACCACAACCAACTTTCCG

upper sequence: Vv11s0052g00840.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os04g55970.1 (Oryza sativa), 3'ss of exon 4
gtgagtaggatctcatctcgtggtcttgtcctgaatcatgatttttcactgttgaataaaagattctgatattccttcaagt--tttagattctcattttggatcaatttttatttatttatttattttttg--tttgcagGTGGGTATGATAAGGAAGAGAAGGCAGCTAGAGCTTATGATCTCGCCGCTCTTAAGTACTGGGGTCCGACCACCACCACTAACTTCCCT
|| || |    | |||       ||| |||     || ||       |||    | ||  ||   ||  | |  |||    |  ||| ||    ||||||      | |  |    |    ||| ||   ||  ||| ||||||| ||||||||||| ||||| || || || || |||||||| |||||  | |||||||||||||| | |||||| || ||||| || 
gtaagaaaagacacatgc----atctagtc-----tcttggccagctactagctagtagtagcagctattgtaactttgcatcgtttggaa---cattttaaggtgaatgatgcagaga-gtttgttcgatgattttacagGTGGCTATGATAAGGAGGAGAAAGCGGCGAGGGCGTATGATCTTGCCGCGTTGAAGTACTGGGGTCCTAGCACCACAACCAACTTTCCG

upper sequence: Vv11s0052g00840.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os11g19060.1 (Oryza sativa), 3'ss of exon 4
gtgagtaggatctcatctcgtggtcttgtcctgaatcatgatttttcactgttgaataaaagattctgatattccttcaagttttagattctcattttggatcaatttttatttatttatttattttttgtttgcagGTGGGTATGATAAGGAAGAGAAGGCAGCTAGAGCTTATGATCTCGCCGCTCTTAAGTACTGGGGTCCGACCACCACCACTAACTTCCCT
                               | | |    ||||     |||| |   ||| ||  |  |  |  ||  | ||     |  |   | |  || || |       || |||  | |   ||    |||| || |||||||||||||| || || ||||| ||||||||| | || || ||||| ||||||||  | || || || || || || || 
------------------------------gtaagtatatatttaagtttgtttacgcaaatatattcgtcatgttttcatttgcgcgtagtatgtgtaaattaaatgagtggcatatatgcaatcaatg----cagGAGGATATGATAAGGAAGAAAAAGCTGCTAGGGCTTATGATTTGGCTGCCCTTAAATACTGGGGCACTACAACGACGACGAATTTTCCG

upper sequence: Vv11s0052g00840.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G086573_T01 (Zea mays), 3'ss of exon 4
gtgagtaggatctcatctcgtggtcttgtcctgaatcatgatt-tttcactgttgaataaaagattctgatattccttcaagttttagattctcattttggatcaatttttatttatttatttattttttgtttgcagGTGGGTATGATAAGGAAGAGAAGGCAGCTAGAGCTTATGATCTCGCCGCTCTTAAGTACTGGGGTCCGACCACCACCACTAACTTCCCT
    ||| || || ||        |||         |||| || ||||| | |  |         |     ||  | |||||    ||  || ||||   |||     | | ||| || ||  || |       | |||||| ||||||||||| |||||||| || || || |||||||| || ||| | |||||||||||| | | ||||||||| ||||| || 
----gtaagaactgattaaacaagctt---------catgtttatttcattatcca---------tgcatcatctcgtcaagcagaagcatcacattgctgatggtactattttttttcatgaatct-------gaagGTGGCTATGATAAGGAGGAGAAGGCTGCCAGGGCGTATGATCTTGCAGCTTTGAAGTACTGGGGTTCTAGCACCACCACCAACTTTCCG

upper sequence: Vv11s0052g00840.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA17G07010.1 (Glycine max), 3'ss of exon 4
gtgagtaggatctcatctcgtggtcttgtcctgaatcatgatttttcactgttgaataaaagattctgatattccttcaagttttagattctcattttggatcaatttttatttatttatttattttttgt-ttgcagGTGGGTATGATAAGGAAGAGAAGGCAGCTAGAGCTTATGATCTCGCCGCTCTTAAGTACTGGGGTCCGACCACCACCACTAACTTCCCT
                               ||| |    ||||   |   |   ||       |  |||| || ||  |||   | | |  | |||| |        || ||| ||  |   |||||||| ||  |||||| ||||| ||||| || |||||||| ||||||||||||||||| ||||| |||||||||||||| || |||||||||||||| |||
------------------------------ttgattgcgcatttcctagattcagattcttctctaggataatcattttagtcaaaaaatgacttttttg--------ttgtttcttcttcctttttttgtgttatagGTGGTTATGACAAGGAGGATAAGGCAGCCAGAGCTTATGATCTCGCAGCTCTCAAGTACTGGGGTCCAACTACCACCACTAACTTTCCT

upper sequence: Vv11s0052g00840.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G00950.1 (Glycine max), 3'ss of exon 4
-----------------------------------------gtgagta-ggatctcat-ctcgtggtcttgtcctgaatcatgatttttcact--gttgaataa----aagattctgatattccttcaagttttagattctcattttgg------atcaatttttatttatttatttattttttgtttgcagGTGGGTATGATAAGGAAGAGAAGGCAGCTAGAGCTTATGATCTCGCCGCTCTTAAGTACTGGGGTCCGACCACCACCACTAACTTCCCT
                                            |  |   | | ||| |   |   |   |  | | | |||||  |  | |   |||   |      |||||| |||  | ||  |    |  |||  ||||||| |      |   | |||| ||| ||  |   ||| |   ||  |||||| ||||| |||||||| |||||||| || ||||| |||||||| ||||| |||||||||||||| || |||||||| ||||| || 
gtgagtatatcattactaccttgacctcatcattttgttttaccatcacaaaccacatacatatatacaactgttcatttatgatcatcaatttgattgcgcatttcccagattcagattcttctctag--ctaggataatcattttagtcaaaaaatgacttttgtttcttcttccttttctgtgttatagGTGGTTATGACAAGGAAGATAAGGCAGCCAGGGCTTACGATCTCGCAGCTCTCAAGTACTGGGGTCCAACTACCACCACCAACTTTCCC

upper sequence: Vv11s0052g00840.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G57390.1 (Arabidopsis thaliana), 3'ss of exon 4
------gtgagtaggatctcatctcgtggtcttgtcctgaatcatgatttttcactgttgaataaaaga--ttctgatattccttcaagttttagat-tctcattttggatcaatttttatttatttatttattttttgtttgcagGTGGGTATGATAAGGAAGAGAAGGCAGCTAGAGCTTATGATCTCGCCGCTCTTAAGTACTGGGGTCCGACCACCACCACTAACTTCCCT
         | ||   ||||   |       || |      || |  || ||   |||  | | ||     |||||| |     |||   | |  || | | | |||| || |||    ||  | | | || ||| || | | ||||||| |||||||||||||| || |||||||||||||| || || || ||||||||||| |||||||| || || || ||||| ||||| 
gtgagttccaataaattctctattaaacaatttatttcatctctttcttctttcttgtgtatttaattcccttctgaaacgttatcattctctttatatttaaatttgtattaat----atgaagtaaattgtttgttatgttcagGTGGTTATGATAAGGAAGATAAAGCAGCTAGAGCTTACGACCTTGCAGCTCTTAAGTATTGGGGTCCTACAACTACGACTAATTTCCCG

upper sequence: Vv11s0052g00840.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ17692 (Selaginella moellendorffii), 3'ss of exon 1
gtgagtaggatctcatctcgtggtcttgtcctgaatcatgatttttcactgt---tgaataaaagattc-tgatattccttcaagttttagattctcattttggatcaatttttatttatttatttattttttgtttgcagGTGGGTATGATAAGGAAGAGAAGGCAGCTAGAGCTTATGATCTCGCCGCTCTTAAGTACTGGGGTCCGACCACCACCACTAACTTCCCT
                                         |  | || |||   |   | |   ||   |   |||  |     || | ||     | ||| | |   ||| | ||  ||| ||  |   || |  | ||| |||||||||  ||| ||||||||||| |||||||| ||||| || ||||| ||||||||||| || || || || || ||||| || 
-----------------------------------------tcctccagtgtacttaggtgagtaatctatcgaatttttctcgattgtggagctaaacttttggtggttttcttttctttttttcttgcgttttgcgtagGGGGGTATGATGCGGAGGAGAAGGCAGCAAGAGCTTACGATCTGGCAGCTCTCAAGTACTGGGGGCCTACGACAACTACAAACTTTCCG

upper sequence: Vv11s0052g00840.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ16224 (Selaginella moellendorffii), 3'ss of exon 1
----------------------------------------------------------------gtgagtaggatctcatctcgtggtcttgtcctgaatcatgattt-ttcactgttgaataaaagattctgatattccttcaagttttagattctcattttggatc--aatttttatttatttatttattttttgtttgcagGTGGGTATGATAAGGAAGAGAAGGCAGCTAGAGCTTATGATCTCGCCGCTCTTAAGTACTGGGGTCCGACCACCACCACTAACTTCCCT
                                                                ||   | ||||||    | ||| | |||   ||   | ||||   | | |   || |   | |       || ||  || | ||||   |    ||| |||| |  || ||||  |  ||| | | |   || |  | ||| || ||||||  ||| ||||||||||| |||||||| ||||| || ||||| ||||||||||| || || || || || ||||| || 
gtactgcttaaaagttttgagagttttttttcatggttttttttctctcttgggtgatttttccgtcc-ttggatct-ggatggtgtttttggtgtggtacttgatccatcctccagtgtacttagg---tgagtaatctatcgaatttt---tctcgattgtggagctaaacttttggtggttt-tctttgcgttttgcgtagGGGGATATGATGCGGAGGAGAAGGCAGCAAGAGCTTACGATCTGGCAGCTCTCAAGTACTGGGGGCCTACGACAACTACAAACTTTCCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttagattctcattttggatcaatttttatttatttatttattttttgtttgcagGTGGGTATGATAAGGAAGAGAAGGCAGCTAGAGCTTATGATCTCGCCGCTCTTAAGTACTGGGGTCCGACCACCACCACTAACTTCCCT
                                 tttatttatttttt  CT-rich tract
           attttggatcaatttt  TA-rich tract