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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTATCCTAAGGATTCAGACAAGCACATGCTCGCCAAACAAACAGGGCTCACCCGGAGTCAGgtgcgcgctagaatcttgggttttttgtgtctttgtttgcagattatgggaactctcaaccagagctttgtgataatgcag

Basic information

species Vitis vinifera
transcript Vv08s0105g00230.t01
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0105g00230.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: LOC_Os11g06020.1 (Oryza sativa), 5'ss of exon 4
TTATCCTAAGGATTCAGACAAGCACATGCTCGCCAAACAAACAGGGCTCACCCGGAGTCAGgtgcgcgctagaat----cttgggttttttgtgtctttgtttgcagattatgggaactctcaaccagagctttgtgataatgcag----------------------------------------
 ||||| |||||||| ||||||  |||||||||||| ||||| || |||||| |||| |||||  |   ||  ||     ||   ||||||      ||| |||     | |  ||  |  |  |  |  |||  || |      |                                        
ATATCCCAAGGATTCGGACAAGATCATGCTCGCCAAGCAAACCGGCCTCACCAGGAGCCAGgtcagaattaagatggagtttaatttttttactgtgttgattgattggtttttgattttactgcgtgttcttcttggttgaattgggtgttgaattttgtgaattttattttggtttgatttcag

upper sequence: Vv08s0105g00230.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GRMZM2G458728_T07 (Zea mays), 5'ss of exon 4
TTATCCTAAGGATTCAGACAAGCACATGCTCGCCAAACAAACAGGGCTCACCCGGAGTCAGgtgcgcgctagaatcttgggttt---tttgtgtctttgtttgcagattatgggaact-ctcaaccagagctttgtgataa-tgcag------------------------
 || || |||||||| ||||||  |||||||||||| ||||| ||||||||| ||||||||||   || || |    ||  | |   ||| | ||||    |||  || |     |||  |  ||  |    ||    ||| | | |                        
ATACCCCAAGGATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgt---cggtaaagctgtgaatctttctttctttcttatcctgcgaatcaatttgactgttttactggcttcttaaattaacttccgaaaaaaattgttcctttctgttag

upper sequence: Vv08s0105g00230.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA19G38690.1 (Glycine max), 5'ss of exon 7
TTATCCTAAGGATTCAGACAAGCACATGCTCGCCAAACAAACAGGGCTCACCCGGAGTCAGgtg--cgcgcta--gaatcttgggttttttgtgtctttgtttg-cagattatgggaactctcaaccagagctttgtgataatgcag
||||||||||||||| |||||||||||||| || |||||||||||||| ||  |||| |||||       ||   |||     |||  ||      ||  ||||    ||  |     |||| ||  |  | || ||| |    |||
TTATCCTAAGGATTCGGACAAGCACATGCTAGCAAAACAAACAGGGCTAACTAGGAGCCAGgtaactagactgatgaagtaatggtacttgactctttcatttgatgaatggttcttcctcttaat-aatgtttggtg-tgtgacag

upper sequence: Vv08s0105g00230.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA03G36070.1 (Glycine max), 5'ss of exon 5
TTATCCTAAGGATTCAGACAAGCACATGCTCGCCAAACAAACAGGGCTCACCCGGAGTCAGgtgcgcgctagaatcttgggttttttgtgtctttgtttgcagattatgggaactctcaaccagagctttgtgataatgcag
||||||||||||||| |||||||||||||| || |||||||||||| | ||  |||| |||||     ||| | |  |||  |||   | | |   || |   ||  |     |||| ||  |    |||||  |  | |||
TTATCCTAAGGATTCGGACAAGCACATGCTTGCAAAACAAACAGGGTTAACAAGGAGCCAGgta---actaaactaatggtatttgactctttcatttggtgaatggttcttcctcttaataatg--tttgttgtgttacag

upper sequence: Vv08s0105g00230.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA10G10040.1 (Glycine max), 5'ss of exon 5
TTATCCTAAGGATTCAGACAAGCACATGCTCGCCAAACAAACAGGGCTCACCCGGAGTCAGgtgc--gcgctagaatct-tgggttttttgtgtctttgtttgcagattatgggaactctcaaccagagctttgtgataatgcag----------------
||| || ||||| ||||||||||||||||| || |||||||||||||| ||| |||| |||||     | |||  | ||     ||  |  |   | ||| |   || ||| |  ||  | |   |  ||  | | ||   |||                 
TTACCCCAAGGACTCAGACAAGCACATGCTTGCTAAACAAACAGGGCTTACCAGGAGCCAGgtaacaccactactagctactacttaataattgttctgtcttttgagtatagttaccgtgagtaatggcaatataatttagcatactccttctatccaat

upper sequence: Vv08s0105g00230.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA02G35450.1 (Glycine max), 5'ss of exon 5
TTATCCTAAGGATTCAGACAAGCACATGCTCGCCAAACAAACAGGGCTCACCCGGAGTCAGgtg----cgc-gctagaatcttgggttttttgtgtctttgtttgcagattatgggaactctcaaccagagctttgtgataatgcag--------------
|||||| ||||| || ||||| |||||||| || |||||||||||||||||| | || |||||     | |  |||     |  |  ||||| || || |  ||     |||     | |   | | | |  ||| | |  ||  |               
TTATCCCAAGGACTCGGACAAACACATGCTTGCAAAACAAACAGGGCTCACCAGAAGCCAGgtaacaccactactattgattaagaatttttctgcctctcatttatagttacaatgagtgatagcaaaatattttttaacatttaatagaagaaattatt

upper sequence: Vv08s0105g00230.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: AT2G35940.2 (Arabidopsis thaliana), 5'ss of exon 4
TTATCCTAAGGATTCAGACAAGCACATGCTCGCCAAACAAACAGGGCTCACCCGGAGTCAGgtgcgcgctagaatcttgggttttttgtgtctttgtttgcagattatgggaac--tctcaaccagagct-----ttgtgataatgcag
 || ||||||||||| |||||||||||||| || || |||||||| ||||| || || ||||| ||    | |||   |  | |||  ||| ||  |  |    ||| |  | |  | | ||  | |  |      | | || ||  ||
ATACCCTAAGGATTCGGACAAGCACATGCTAGCTAAGCAAACAGGACTCACTCGTAGCCAGgtacgtttcaaaat---gattctttcttgtgttattaggttacttaagaaagcgtttttaagtaaatttattttctttaattatttag

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|161714978|gb|FC063948.1|FC063948
EST:     ATTCAGACAAGCACATGCTCGCCAAACAAACAGGGCTCACCCGGAGTCAG                         GTGTCTAACTGGTTCATAAATGCTCGGGTTCGTCTCTGGAAGCCA-TGGTG
genomic: ATTCAGACAAGCACATGCTCGCCAAACAAACAGGGCTCACCCGGAGTCAGgtgcgcgcta ... gataatgcagGTGTCTAACTGGTTCATAAATGCTCGGGTTCGTCTCTGGAAGCCAATGGTG
EST: gi|38516686|gb|CF983861.1|CF983861
EST:     TCAGACAAGCACATGCTCGCCAAACAAACAGGGNCTCACCCGGNAGTCAG                         GTGTCTAACTGGTTCATAAATGCTCGGGTTCGTCTCTGGAAGCCAATGGT
genomic: TCAGACAAGCACATGCTCGCCAAACAAACAGGG-CTCACCCGG-AGTCAGgtgcgcgcta ... gataatgcagGTGTCTAACTGGTTCATAAATGCTCGGGTTCGTCTCTGGAAGCCAATGGT
EST: gi|161716829|gb|FC068101.1|FC068101
EST:     ATTCAGACAAGCACATGCTCGCCAAACAAACAGGGCTCACCCGGAGTCAG                         GTGTCTAACTGGTTCATAAATGCTCGGGTTCGTCTCTGGAAGCCAATGGTG
genomic: ATTCAGACAAGCACATGCTCGCCAAACAAACAGGGCTCACCCGGAGTCAGgtgcgcgcta ... gataatgcagGTGTCTAACTGGTTCATAAATGCTCGGGTTCGTCTCTGGAAGCCAATGGTG
EST: gi|29786121|gb|CB343619.2|CB343619
EST:     ATTCAGACAAGCACATGCTCGCCAAACAAACAGGGCTCACCCGGAGTCAG                         GTGTCTAACTGGTTCATAAATGCTCGGGTTCGTCTCTGGAAGCCAATGGTG
genomic: ATTCAGACAAGCACATGCTCGCCAAACAAACAGGGCTCACCCGGAGTCAGgtgcgcgcta ... gataatgcagGTGTCTAACTGGTTCATAAATGCTCGGGTTCGTCTCTGGAAGCCAATGGTG
EST: gi|110728156|gb|EE103480.1|EE103480
EST:     ATTCAGACAAGCACATGCTCGCCAAACAAACAGGGCTCACCCGGAGTCAG                         GTGTCTAACTGGTTCATAAATGCTCGGGTTCGTCTCTGGAAGCCAATGGTG
genomic: ATTCAGACAAGCACATGCTCGCCAAACAAACAGGGCTCACCCGGAGTCAGgtgcgcgcta ... gataatgcagGTGTCTAACTGGTTCATAAATGCTCGGGTTCGTCTCTGGAAGCCAATGGTG
EST: gi|110712074|gb|EE089283.1|EE089283
EST:     ATTCAGACAAGCACATGCTCGCCAAACAAACAGGGCTCACCCGGAGTCAG                         GTGTCTAACTGGTTCATAAATGCTCGGGTTCGTCTCTGGGAGCCAATGGTG
genomic: ATTCAGACAAGCACATGCTCGCCAAACAAACAGGGCTCACCCGGAGTCAGgtgcgcgcta ... gataatgcagGTGTCTAACTGGTTCATAAATGCTCGGGTTCGTCTCTGGAAGCCAATGGTG
EST: gi|351056024|gb|FQ453485.1|FQ453485
EST:     ATTCAGACAAGCACATGCTCGCCAAACAAACAGGTCTCACCCGGAGTCAG                         GTGTCTAACTGGTTCATAAATGCTCGGGTTCGTCTCTGGAAGCCAATGGTG
genomic: ATTCAGACAAGCACATGCTCGCCAAACAAACAGGGCTCACCCGGAGTCAGgtgcgcgcta ... gataatgcagGTGTCTAACTGGTTCATAAATGCTCGGGTTCGTCTCTGGAAGCCAATGGTG
EST: gi|161720884|gb|FC069618.1|FC069618
EST:     ATTCAGACAAGCACATGCTCGCCAAACAAACAGGGCTCACCCGGAGTCAG                         GTGTCTAACTGGTTCATAAATGCTCGGGTTCGTCTCTGGAAGCCAATGGTG
genomic: ATTCAGACAAGCACATGCTCGCCAAACAAACAGGGCTCACCCGGAGTCAGgtgcgcgcta ... gataatgcagGTGTCTAACTGGTTCATAAATGCTCGGGTTCGTCTCTGGAAGCCAATGGTG