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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGACGTGTGGTCATGTGGGGTAACATTATATGTTATGCTTGTTGGTGCATATCCTTTTGAGGATCCTGATGAACCCAAGGACTTCCGAAAAACAATACAAgtatttcactaggccttattattgcatcatgaatctgtgatatgaatctcatctgaaaatgccccttattatttcatgcag

Basic information

species Vitis vinifera
transcript Vv07s0197g00080.t01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0197g00080.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: LOC_Os03g55600.1 (Oryza sativa), 5'ss of exon 7
AGACGTGTGGTCATGTGGGGTAACATTATATGTTATGCTTGTTGGTGCATATCCTTTTGAGGATCCTGATGAACCCAAGGACTTCCGAAAAACAATACAAgt------atttcactaggccttattattgcatcatgaat-ctgtgatatgaatctcatctgaaaatgccccttattatttcatg-cag----------------
 || || ||||| ||||| || ||  ||||||||||| | ||||||||||||||||| |||||||| || || || ||| ||||||| |||||||| || ||      |||||  |     ||  | |||| |  |  |   ||    |    | |||||      |  |  | |  |  | ||| |||                
TGATGTATGGTCCTGTGGTGTGACTCTATATGTTATGGTAGTTGGTGCATATCCTTTCGAGGATCCAGAAGAGCCTAAGAACTTCCGTAAAACAATTCAGgttatataatttcttttcttatttctcttgctttgtttacattggagcacttttttcatccttggctctctgtgaaaagctgatgtcagtgtcatttttgtgcag

upper sequence: Vv07s0197g00080.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: LOC_Os03g41460.1 (Oryza sativa), 5'ss of exon 5
AGACGTGTGGTCATGTGGGGTAACATTATATGTTATGCTTGTTGGTGCATATCCTTTTGAGGATCCTGATGAACCCAAGGACTTCCGAAAAACAATACAAgtatttcacta-ggcctt--attattgcatcatgaatctgtgatatgaatctcatctgaaaatgccccttatta--tttcat----gcag
 || |||||||| ||||| |||||  | || || ||||| |||||||||||||||||||||||||| ||||| || ||| | ||| | || ||||| || || || || |  || | |  |  ||  |    | ||  | | |||   || |    |  |||  |   |   |    |||||    ||||
TGATGTGTGGTCGTGTGGAGTAACCCTCTACGTAATGCTGGTTGGTGCATATCCTTTTGAGGATCCAGATGAGCCTAAGAATTTCAGGAAGACAATTCAGgt-ttccattgcggtcatccaacatcacggtctcaaaatttcataaccattttgattacaaaaactgatcgatgatcttcattttcgcag

upper sequence: Vv07s0197g00080.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GRMZM2G138861_T01 (Zea mays), 5'ss of exon 8
AGACGTGTGGTCATGTGGGGTAACATTATATGTTATGCTTGTTGGTGCATATCCTTTTGAGGATCCTGATGAACCCAAGGACTTCCGAAAAACAATACAAg-----tatttcactaggccttatta----ttgcat-catgaatctgtgatatgaatctcatctgaaaatgccccttat-tatttcatgcag---------
 ||||| ||||||||||| |||||  | ||||| ||| ||||||| |||||||||||||| ||||| || || || ||| ||||||| || ||||| || |     | |||   |  || |   ||    ||| || ||  |   ||  | | | |  ||        ||  | | ||| | | |     ||         
TGACGTTTGGTCATGTGGTGTAACCCTCTATGTAATGGTTGTTGGCGCATATCCTTTTGAAGATCCAGAAGAGCCTAAGAACTTCCGCAAGACAATTCAGgttatctttttttttcagcatgggtacaagttgaatgcacaagagtgc-acacgtacttctgtcagttatagcacatatgtgtgtgtcctagcacgcaccc

upper sequence: Vv07s0197g00080.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GRMZM2G171435_T02 (Zea mays), 5'ss of exon 7
AGACGTGTGGTCATGTGGGGTAACATTATATGTTATGCTTGTTGGTGCATATCCTTTTGAGGATCCTGATGAACCCAAGGACTTCCGAAAAACAATACAAgtatttcactaggccttattattgcatcatgaatctgtgatatgaatctcatctgaaaatgccccttattatttcatgcag--------------------
 || || ||||||||||| |||||  | ||||| |||  ||||||||||||||||||||| || || || || || ||| ||||||| || ||||| || ||  ||   |     | ||   | ||   |||||       |     | |   ||   |       | |  |      |||                    
TGATGTTTGGTCATGTGGTGTAACCCTCTATGTAATGGCTGTTGGTGCATATCCTTTTGAAGACCCAGAAGAGCCTAAGAACTTCCGCAAGACAATTCAGgttattttttttctttcatggatacaagttgaatgcacaccagagcacgcgcttgtgtacagtgtatgt-gtcaatcacagcacatatgtgtcctagcaca

upper sequence: Vv07s0197g00080.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA17G20610.4 (Glycine max), 5'ss of exon 7
AGACGTGTGGTCATGTGGGGTAACATTATATGTTATGCTTGTTGGTGCATATCCTTTTGAGGATCCTGATGAACCCAAGGACTTCCGAAAAACAATACAAgtatttca----ctaggccttattattgcatcatgaatctgtgatatg-aatctcatctgaaaatgccccttattatttcat-gcag
||| || ||||||||||| ||||| |||||||| ||||| || || ||||||||||||||||||||| ||||||| |||||||| || || ||||| || |||  |||     || |   | |  |    |  |  ||  |   | |   ||  | |  | | | |   ||  ||  ||| | ||||
AGATGTCTGGTCATGTGGAGTAACCTTATATGTGATGCTAGTGGGAGCATATCCTTTTGAGGATCCTAATGAACCAAAGGACTTTCGGAAGACAATTCAGgtacatcagatattaagatatgtgctcattttcttcattagcagtgtctgattgcttgagtataagttgctgcttgcttctttgcag

upper sequence: Vv07s0197g00080.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA05G09460.1 (Glycine max), 5'ss of exon 7
AGACGTGTGGTCATGTGGGGTAACATTATATGTTATGCTTGTTGGTGCATATCCTTTTGAGGATCCTGATGAACCCAAGGACTTCCGAAAAACAATACAAgtatttca----ctaggc------cttattattgcatcatg-aatctgtgata---tgaatctcatctgaaaatgccccttattatttcatgcag
||| || ||||||||||| ||||| |||||||| ||||| || || |||||||||||||| |||||| ||||||| |||||||| || || ||||| || |||  |||     || |       || ||| ||   |   | | | | ||||    ||| | | |  ||    |||  |||  |  ||  | |||
AGATGTCTGGTCATGTGGAGTAACGTTATATGTGATGCTAGTGGGAGCATATCCTTTTGAAGATCCTAATGAACCAAAGGACTTTCGCAAGACAATTCAGgtacatcagatattaagatatgtgctcatttttttcttgagtagtgtctgattgcttgagtataacttgtggttgctgcttgcttctt--tccag

upper sequence: Vv07s0197g00080.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA11G06250.2 (Glycine max), 5'ss of exon 7
AGACGTGTGGTCATGTGGGGTAACATTATATGTTATGCTTGTTGGTGCATATCCTTTTGAGGATCCTGATGAACCCAAGGACTTCCGAAAAACAATACAAgtatttcactaggccttattattgcatcatgaatctgtgatatgaatctcatc---tgaaaatgccccttatt-----atttcatgcag-------------------------------
||| || ||||||||||| ||||| || | ||| ||||| || ||  ||||||||||||| |||||| |||| || ||||| ||||| || ||||| || ||   ||  ||    |||  ||     ||||  |   | | | |  |||  |    |||  |   ||  | ||      || | |||||                               
AGATGTCTGGTCATGTGGAGTAACCTTGTTTGTGATGCTAGTGGGATCATATCCTTTTGAAGATCCTAATGATCCAAAGGATTTCCGGAAGACAATTCAGgttgatc--taatatttaagatatttgcatgttttctttacaagcctctggttgcgtgagcacaacctgttttggttggttccttgcagagggttctcagtgtccagtattccattccag

upper sequence: Vv07s0197g00080.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA11G06250.1 (Glycine max), 5'ss of exon 7
AGACGTGTGGTCATGTGGGGTAACATTATATGTTATGCTTGTTGGTGCATATCCTTTTGAGGATCCTGATGAACCCAAGGACTTCCGAAAAACAATACAAgtatttcactaggccttattattgcatcatgaatctgtgatatgaatctcatc---tgaaaatgccccttatta-----tttcatgcag
||| || ||||||||||| ||||| || | ||| ||||| || ||  ||||||||||||| |||||| |||| || ||||| ||||| || ||||| || ||   ||  ||    |||  ||     ||||  |   | | | |  |||  |    |||  |   ||  | ||      || | |||||
AGATGTCTGGTCATGTGGAGTAACCTTGTTTGTGATGCTAGTGGGATCATATCCTTTTGAAGATCCTAATGATCCAAAGGATTTCCGGAAGACAATTCAGgttgatc--taatatttaagatatttgcatgttttctttacaagcctctggttgcgtgagcacaacctgttttggttggttccttgcag

upper sequence: Vv07s0197g00080.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA01G39020.1 (Glycine max), 5'ss of exon 7
AGACGTGTGGTCATGTGGGGTAACATTATATGTTATGCTTGTTGGTGCATATCCTTTTGAGGATCCTGATGAACCCAAGGACTTCCGAAAAACAATACAAgt-atttcactaggccttattattgcatcatgaatctgtgatatgaatctcatctgaaaatgccccttatta-----tttcatgcag
||| || ||||||||||| ||||| || | ||| ||||| || ||  ||||||||||||| |||||| |||| || ||||| ||||| || ||||| || ||   |    ||      ||  ||||||  |   | |   |  |     |    |||  |   ||  | ||      || | |||||
AGATGTCTGGTCATGTGGAGTAACCTTGTTTGTGATGCTAGTGGGATCATATCCTTTTGAAGATCCTAATGATCCAAAGGATTTCCGGAAGACAATTCAGgttgatctgatatttaagatatttgcatgttttctttacaagctcctggttgcgtgagcacaacctgttttggttggttccttgcag

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGACGTGTGGTCATGTGGGGTAACATTATATGTTATGCTTGTTGGTGCATATCCTTTTGAGGATCCTGATGAACCCAAGGACTTCCGAAAAACAATACAAgtatttcactaggccttattattgcatcatgaatctgtgatatgaatctcatctgaaaatgccccttattatttcatgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT