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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGTCCACGTTGTGGCCTTGGTGAACTCATTCTTCCTGAAAACGAGCCAGGCAGCAGTATTATGCCTgtaaaatcctgatctctttcccatatatttttatgacagtaaaaagatgatattttcacttgcacttgctacatttaggattcatttattcatcctttagctttttctatttcag

Basic information

species Vitis vinifera
transcript Vv07s0005g00880.t01
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0005g00880.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: LOC_Os03g21950.1 (Oryza sativa), 5'ss of exon 11
TGGTCCACGTTGTGGCCTTGGTGAACTCATTCTTCCTGAAAACGAGCCAGGCAGCAGTATTATGCCTgtaaaatcctgat-ctctttcccatatatttttatgacagtaaaaagatgatatttt-cacttgcacttgctacatttaggattcatttattcatcctttagctttttctatttcag
 || || || ||||| ||||||||||| || || |||||||| ||||| || ||||| ||||||||||||| |   |  | |  ||     | |   ||| | | | ||  |   || |||    || | |   |  |||| |  |   | ||                               
CGGCCCCCGATGTGGACTTGGTGAACTTATCCTACCTGAAAATGAGCCTGGGAGCAGCATTATGCCTgtaagactgtattgcatttgattgtttcagtttctca-attagcactgtgctatcaagcattggttttaactacttccatcttacag------------------------------

upper sequence: Vv07s0005g00880.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GRMZM2G010823_T01 (Zea mays), 5'ss of exon 11
TGGTCCACGTTGTGGCCTTGGTGAACTCATTCTTCCTGAAAACGAGCCAGGCAGCAGTATTATGCCTgtaaaatcctgatctctttcccatatatttttatgacagtaaaaagatgatattttcacttgcacttgctacatttaggattcatttattcatcctttagctttttctatttcag
|||||| || ||||| ||||||||||| || || || ||||| ||||| || ||||| |||||||||||||                    | | | |||| | | | |  | ||| | |||  |  |  |    |   |   || |||       |  |  || | ||| | || ||||||
TGGTCCTCGGTGTGGTCTTGGTGAACTAATCCTACCAGAAAATGAGCCTGGGAGCAGCATTATGCCTgtaag------------------cagactgttattata-tcatgatatggtttttgtatgttgatcaacggaagacagcattgtgaagcttctgtttcaacttgtact-tttcag

upper sequence: Vv07s0005g00880.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GLYMA02G01920.1 (Glycine max), 5'ss of exon 11
TGGTCCACGTTGTGGCCTTGGTGAACTCATTCTTCCTGAAAACGAGCCAGGCAGCAGTATTATGCCTgtaaaatcctgatctctttcccatatatttttatgacagtaaaaagatgatattttcacttgcacttgctacatttaggattcatttattcatcctttagcttt--ttctatttcag-----------------------
||||||||| || || ||||||||||||||||||||||||||||| ||||| |||||||| |||||||||| ||||| ||         |||||  ||| | |||  ||  || ||    |||   |  ||||||||| | ||   ||| |||||||  || |  |  |    ||  | |  |                        
TGGTCCACGCTGCGGTCTTGGTGAACTCATTCTTCCTGAAAACGAACCAGGGAGCAGTATCATGCCTgtaagatcctcatgctgactgaatataaatttgttacacaaaccagctg----ttttcttgtcacttgctatagttc--attaatttatttgtcttgcaattggaatttgactctaagccacaactgtattctgtttcag

upper sequence: Vv07s0005g00880.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GLYMA10G02040.1 (Glycine max), 5'ss of exon 11
TGGTCCACGTTGTGGCCTTGGTGAACTCATTCTTCCTGAAAACGAGCCAGGCAGCAGTATTATGCCTgtaaaatcctgatctctttcccatatatttttatgacagtaaaaagatgatattttcacttgcacttgctacatttaggattcatttattcatcctttagcttt--ttctatttcag----------------------
||||||||| || || ||||||||||||||||||||||||||||| ||||| || ||||| |||||||||| ||||| ||         || ||  ||| | |||  ||  || ||   |||||  ||  |||||||| | ||   |||  ||||||  |  |  |  |    ||  | |  |                       
TGGTCCACGCTGCGGTCTTGGTGAACTCATTCTTCCTGAAAACGAACCAGGAAGTAGTATCATGCCTgtaagatcctcatgctgactgaatttaaatttgttacacaaaccagttg---ttttcttttttacttgctatagttc--attgttttatttttgttacaattggaatttgactctaagcacaactgtattctgtttcag

upper sequence: Vv07s0005g00880.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GLYMA02G01930.1 (Glycine max), 5'ss of exon 11
TGGTCCACGTTGTGGCCTTGGTGAACTCATTCTTCCTGAAAACGAGCCAGGCAGCAGTATTATGCCTgtaaaatcctgatctctttcccatatatttttatgacagtaaaaagatgatattttcacttgcacttgctacatttaggattcatttattcatcctttagctttttctatttcag
||||||||| || || ||||| || |||||||||||||||||||| ||||| ||||||||||||||||||| ||||| ||          ||||||| |   |||||        | | |||||   |  |||| ||| |       ||||||  || ||  ||  |  || ||||  ||| 
TGGTCCACGCTGCGGTCTTGGGGAGCTCATTCTTCCTGAAAACGAACCAGGAAGCAGTATTATGCCTgtaagatcctcatgctgactgactatatttgttacacagtgg------gctgttttcttgt-tactttctata------gttcattattttat--ttgggagttgtctagctcac

upper sequence: Vv07s0005g00880.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: AT2G47510.1 (Arabidopsis thaliana), 5'ss of exon 12
TGGTCCACGTTGTGGCCTTGGTGAACTCATTCTTCCTGAAAACGAGCCAGGCAGCAGTATTATGCCTgtaaaatcctgatctctttcccatatatttttatgacagtaaaaagatgatattttcacttgcacttgctacatttaggattcatttattcatcctttagctttttctatttcag
||| ||| | ||||| |||||||||||  | || |||||||| |||||||| |||||||| |||||||||  |     ||||   |||  |    || | |     |            |||||||| |   ||| | ||  | | |||  |||||   |   | ||               
TGGCCCAAGATGTGGTCTTGGTGAACTTGTACTACCTGAAAATGAGCCAGGAAGCAGTATCATGCCTgtatgaatgcaatct---tcctttgctcttctgtcctttt----------ctttttcactagt-tttgattcaaat-gaatt--tttatctctttctcag---------------

upper sequence: Vv07s0005g00880.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: AT5G50950.2 (Arabidopsis thaliana), 5'ss of exon 11
TGGTCCACGTTGTGGCCTTGGTGAACTCATTCTTCCTGAAAACGAGCCAGGCAGCAGTATTATGCCTgtaaaatcctgatctctttcccatatatttttatgacagtaaaaagatgatattttcacttgcacttgctacatttaggattcatttattcatcctttagctttttctatttcag--
||||||| | ||||| |||||||||||   ||| ||||| || || ||||| ||||||||||||||||||  |     || | ||||| ||   || ||||| |  |              |   | |  || |  ||  |||   |    || |||||   |  |  ||  ||||| ||    
TGGTCCAAGATGTGGTCTTGGTGAACTTTCTCTGCCTGAGAATGAACCAGGAAGCAGTATTATGCCTgtatgaatgcaattt-tttcctatg-gttcttatgtcctttccct--ctgcggctctgcctataccttttatttttcatagattttgattcaat-tgaattttaatctatctctcag

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|352794271|gb|FQ479513.1|FQ479513
EST:     TTGGTGAACTCATTCTTCCTGAAAACGAGCCAGGCAGCAGTATTATGCCT                         GGAAAGGTTAACCCTACTCAGTGTGAGGCTCTCACAATGGTCTGTGCTCAG
genomic: TTGGTGAACTCATTCTTCCTGAAAACGAGCCAGGCAGCAGTATTATGCCTgtaaaatcct ... tctatttcagGGAAAGGTTAACCCTACTCAGTGTGAGGCTCTCACAATGGTCTGTGCTCAG
EST: gi|33402398|gb|CF208025.1|CF208025
EST:     TCATTCTTCCTGAAAACGAGCCAGGCAGCAGTATTATGCCT                         GGAAAGGTTACCCCTACTCAGTGTGAGGCTCTCACAATGGTCTGTGCTCAG
genomic: TCATTCTTCCTGAAAACGAGCCAGGCAGCAGTATTATGCCTgtaaaatcct ... tctatttcagGGAAAGGTTAACCCTACTCAGTGTGAGGCTCTCACAATGGTCTGTGCTCAG
EST: gi|110363110|gb|EC926680.1|EC926680
EST:     TTGGTGAACTCATTCTTCCTGAAAACGAGCCAGGCAGCAGTATTATGCCT                         GGAAAGGTTAACCCTACTCAGTGTGAGGCTCTCACAATGGTCTGTGCTCAG
genomic: TTGGTGAACTCATTCTTCCTGAAAACGAGCCAGGCAGCAGTATTATGCCTgtaaaatcct ... tctatttcagGGAAAGGTTAACCCTACTCAGTGTGAGGCTCTCACAATGGTCTGTGCTCAG
EST: gi|110407161|gb|EC972758.1|EC972758
EST:     TTGGTGAACTCATTCTTCCTGAAAACGAGCCAGGCAGCAGTATTATGCCT                         GGAAAGGTTAACCCTACTCAGTGTGAGGCTCTCACAATGGTCTGTGCTCAG
genomic: TTGGTGAACTCATTCTTCCTGAAAACGAGCCAGGCAGCAGTATTATGCCTgtaaaatcct ... tctatttcagGGAAAGGTTAACCCTACTCAGTGTGAGGCTCTCACAATGGTCTGTGCTCAG
EST: gi|110361036|gb|EC924487.1|EC924487
EST:     TTGGTGAACTCATTCTTCCTGAAAACGAGCCAGGCAGCAGTATTATGCCT                         GGAAAGGTTAACCCTACTCAGTGTGAGGCTCTCACAATGGTCTGTGCTCAG
genomic: TTGGTGAACTCATTCTTCCTGAAAACGAGCCAGGCAGCAGTATTATGCCTgtaaaatcct ... tctatttcagGGAAAGGTTAACCCTACTCAGTGTGAGGCTCTCACAATGGTCTGTGCTCAG
EST: gi|110698892|gb|EE076910.1|EE076910
EST:     TTGGTGAACTCATTCTTCCTGAAAACGAGCCAGGCAGCAGTATTATGCCT                         GGAAAGGTTAACCCTACTCAGTGTGAGGCTCTCACAATGGTCTGTGCTCAG
genomic: TTGGTGAACTCATTCTTCCTGAAAACGAGCCAGGCAGCAGTATTATGCCTgtaaaatcct ... tctatttcagGGAAAGGTTAACCCTACTCAGTGTGAGGCTCTCACAATGGTCTGTGCTCAG
EST: gi|351045827|gb|FQ441012.1|FQ441012
EST:     TTGGTGAACTCATTCTTCCTGAAAACGAGCCAGGCAGCAGTATTATGCCT                         GGAAAGGTTAACCCTACTCAGTGTGAGGCTCTCACAATGGTCTGTGCTCAG
genomic: TTGGTGAACTCATTCTTCCTGAAAACGAGCCAGGCAGCAGTATTATGCCTgtaaaatcct ... tctatttcagGGAAAGGTTAACCCTACTCAGTGTGAGGCTCTCACAATGGTCTGTGCTCAG