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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGTTGGAGACATCCAGAAAAGGTTATCTTGCGGCAATATCTGCATCAAGTTACTCCTACGTTTCTTTACTCAAGTGTTTCATTCCTATAATGAACCCAGgcacacatctttccccatacttgttctgtgttcccttcccatccgttttttctgaactctacttccttttttacggtggtaagttatactgttgctagatttaattcttgccatgttgctattacag

Basic information

species Vitis vinifera
transcript Vv06s0004g01310.t01
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g01310.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: LOC_Os08g23810.2 (Oryza sativa), 5'ss of exon 8
CTGTTGGAGACATCCAGAAAAGGTTATCTTGCGGCAATATCTGCATCAAGTTACTCCTACGTTTCTTTACTCAAGTGTTTCATTCCTATAATGAACCCAGgcacacatctttccccatacttgttctgtgttcccttcccatccgttttttctgaactctacttccttttttacggtggtaagttatactgttgctagatttaattcttgccatgttgctattacag
|| ||||||||||| |||| ||| |||||||| ||| | || ||||| |||||||||| ||| ||||| ||  ||   ||| ||||||||||||| ||||| |    |   ||| ||     |||||       ||  |||  | |    |   | | |||  |  |    | |   | ||| | |  | ||| ||   ||| ||   |                  
CTATTGGAGACATCAAGAAGAGGGTATCTTGCTGCACTGTCAGCATCGAGTTACTCCTTCGTCTCTTTGCTTCAGCACTTCCTTCCTATAATGAATCCAGgtagtgcttactccgca-----gttctaa-----ctctccacgcctgcacttgaaccgctatcttatacactccta-gataaatcaagccgttactgcctttcatatcttt----------------

upper sequence: Vv06s0004g01310.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: LOC_Os09g10600.1 (Oryza sativa), 5'ss of exon 8
CTGTTGGAGACATCCAGAAAAGGTTATCTTGCGGCAATATCTGCATCAAGTTACTCCTACGTTTCTTTACTCAAGTGTTTCATTCCTATAATGAACCCAGgcacacatctttccccatacttgttctgtgttcccttcccatccgttttttctgaactctacttccttttttacggtggtaagttatactg-ttgctagatttaattcttgccatgttgctattacag
 || |||||||||| |||||||| |||||||| ||| | || ||||| |||||||| | | | ||||||||| |    ||| ||||||||||||| ||||| |   | |  ||        || |||||   |  ||   ||    | ||||||  |     |   ||||| |       || | || ||  || ||  ||||| ||                     
TTGCTGGAGACATCAAGAAAAGGGTATCTTGCTGCAGTTTCAGCATCTAGTTACTCTTTCATCTCTTTACTCCAACACTTCCTTCCTATAATGAATCCAGgtatcaaacaatctttgctagtgctctgtaa-ctattattattttctctttctgttcaggtgtggatttttaa-------aaatcatgctactttctcaatttatttg--------------------

upper sequence: Vv06s0004g01310.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GRMZM2G125052_T01 (Zea mays), 5'ss of exon 6
CTGTTGGAGACATCCAGAAAAGGTTATCTTGCGGCAATATCTGCATCAAGTTACTCCTACGTTTCTTTACTCAAGTGTTTCATTCCTATAATGAACCCAGgcacacatctttccccatacttgttctgtgttccctt-cccatccgttttttctgaactctacttccttttttacggtggtaagttatactgttgctagatttaattcttgccatgttgctattacag
 ||||||||||||| |||| ||| |||||||||||||| || ||||| ||||||||||| ||||| || ||  ||  |||| |||||||||||||||| || |    ||     | |  || | |   || |        |||  |      |  || | |||     |  | |       |   || | | || | | || |                         
TTGTTGGAGACATCAAGAAGAGGCTATCTTGCGGCAATTTCAGCATCGAGTTACTCCTATGTTTCATTGCTTCAGCATTTCCTTCCTATAATGAACCCCGgta---gtcaggggcgaagctaggtagatgctagggggtgcatatgcacccgcgaaattttacaaaactactgatt----cagactagatttttaccatatatgcac---------------------

upper sequence: Vv06s0004g01310.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GRMZM2G070422_T03 (Zea mays), 5'ss of exon 8
CTGTTGGAGACATCCAGAAAAGGTTATCTTGCGGCAATATCTGCATCAAGTTACTCCTACGTTTCTTTACTCAAGTGTTTCATTCCTATAATGAACCCAGgca-cacatctttccccatacttgttctgtgttcccttcccatccgttttttctgaactctacttccttttttacggtggtaagttatactgttgctagatttaattcttgccatgttgctattacag
 ||||||| || || |||| ||| |||||||||||||| |||||||| ||||||||||| ||||| || ||  ||   ||| ||||||||||||| || || |   ||| | |||  || ||  |  ||   |  ||||    || || ||||  |     |  |   |  |   | || |   || |  | |  ||  |   |                        
TTGTTGGAAACCTCAAGAAGAGGCTATCTTGCGGCAATTTCTGCATCCAGTTACTCCTATGTTTCATTGCTTCAGCACTTCCTTCCTATAATGAATCCCGgtagtgcatatctcct-atgct-atcatgctgtggcttcta--ccattatttcccatgctaagattaatactgctgttgctgcctttttttttctcttaaccca------------------------

upper sequence: Vv06s0004g01310.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GLYMA11G10770.1 (Glycine max), 5'ss of exon 8
CTGTTGGAGACATCCAGAAAAGGTTATCTTGCGGCAATATCTGCATCAAGTTACTCCTACGTTTCTTTACTCAAGTGTTTCATTCCTATAATGAACCCAGgcacacatctttccccatacttgttctgtgttcccttcccatccgttttttctgaactctacttccttttttacggtggtaagttatactgttgctagatttaattcttgccatgttgctattacag
 |||||||||||||  | ||||| |||||||| |||||||||||||| ||||||||||| |||||||||||||||  |||  |||| ||  ||||||||||||    ||||  |  ||    |  ||    |    || | ||   |  ||| | |    | ||  | ||||||  |  | | ||     |||  |||                             
TTGTTGGAGACATCTCGGAAAGGATATCTTGCTGCAATATCTGCATCTAGTTACTCCTATGTTTCTTTACTCAAGCATTTTCTTCCAATCTTGAACCCAGgcatgtctcttatcttattaaagggcttccattatatcacttca--tacttccgcatatcattttatcttttacttttatgattt-----gtttttag-----------------------------

upper sequence: Vv06s0004g01310.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GLYMA12G03060.1 (Glycine max), 5'ss of exon 9
CTGTTGGAGACATCCAGAAAAGGTTATCTTGCGGCAATATCTGCATCAAGTTACTCCTACGTTTCTTTACTCAAGTGTTTCATTCCTATAATGAACCCAGgcacacatctttccccat-acttgttctgtgttcccttcccatccgttttttctgaactctacttccttttttacggtggtaagttatactgttgctagatttaattcttgccatgttgctattacag
 |||||||||||||  | || || |||||||| |||||||||||||| |||||||| || |||||||||||||||  |||  |||| ||  ||||||||||||  | ||||  |  || ||  | | |   ||   || |       ||   |  | |   | ||  | ||||||  |  | | ||     |||  |||                             
TTGTTGGAGACATCTCGGAATGGGTATCTTGCTGCAATATCTGCATCTAGTTACTCATATGTTTCTTTACTCAAGCATTTTCTTCCAATCTTGAACCCAGgcatgcctcttatcttattaccgggtttccattatattacttcatacttccacctatc---attttatcttttacttttatgattt-----gtttttag-----------------------------

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|77583292|gb|DV220679.1|DV220679
EST:     TTACTCCTACGTTTCTTTACTCAAGTGTTTCATTCCTATAATGAACCCAG                         GTGGATCTTCAATTTCTCTAACATACATTGCTTCTGAGAGGATCATTCCAG
genomic: TTACTCCTACGTTTCTTTACTCAAGTGTTTCATTCCTATAATGAACCCAGgcacacatct ... gctattacagGTGGATCTTCAATTTCTCTAACATACATTGCTTCTGAGAGGATCATTCCAG