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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtaaggcactccagtgtgaatttgatacaatgatgcacagatgtgaatttgtaaaattttgattgaggaaagctaattttttgttttcaattaaaaacagATCAATATGAAAGGTTTGGATGGGATCCAGGGACCAATTTATGTTGGAACTGGCTGTGTCTTCAGACGGCAGGCACTCTATGGATATGATGCCCCTGTCA

Basic information

species Vitis vinifera
transcript Vv18s0072g00370.t01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0072g00370.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM5G840940_T01 (Zea mays), 3'ss of exon 1
gtacgtaaggcactccagtgtgaatttgatacaatgatgcacagatgtgaatttgtaaaattttgattgaggaaagctaattttttgttttcaattaaaaacagATCAATATGAAAGGTTTGGATGGGATCCAGGGACCAATTTATGTTGGAACTGGCTGTGTCTTCAGACGGCAGGCACTCTATGGATATGATGCCCCTGTCA
||| ||| ||||        ||||||   |  ||   |      | |   |  |  || ||  |  |      ||| |  |   || | | |   |     ||||| || ||||||||| | ||||||||||| |||||||| |||||||| ||||| ||||| |||||| | || ||  | ||||| |||||||||||     
gtatgtatggca--------tgaattcattctaactttatctgaaag---acattgaagatagtattctgaacaagtttctgcattatctacttctctttgcagATTAACATGAAAGGTCTTGATGGGATCCAAGGACCAATATATGTTGGGACTGGTTGTGTTTTCAGAAGACATGCTTTGTATGGTTATGATGCCCCAACTG

upper sequence: Vv18s0072g00370.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA02G08920.1 (Glycine max), 3'ss of exon 10
gtacgtaaggcact-ccagtgtgaatttgataca-atgatgcacagatgtgaatttgtaaaattttgattgagg--aaagctaattttttgttttcaattaaaaacagATCAATATGAAAGGTTTGGATGGGATCCAGGGACCAATTTATGTTGGAACTGGCTGTGTCTTCAGACGGCAGGCACTCTATGGATATGATGCCCCTGTCA
||| |||||    | | | |||   ||    | | || ||  |||    |  |  | |  | |||   |||| |  ||||||||| |||   |||||||     | ||||||||||||||||||| ||||| ||||| |||||||| ||||| |||||||| |||||||||||  | |||||| ||||||||||||||||||||    
gtaagtaagaatttgctactgttgtttgtgcatatataatatacattcatatacct-tgcagtttgctttgaaggaaaagctaatatttg--tttcaat-gtgtatagATCAATATGAAAGGTTTAGATGGCATCCAAGGACCAATATATGTGGGAACTGGGTGTGTCTTCAGGAGACAGGCATTCTATGGATATGATGCCCCTACAT

upper sequence: Vv18s0072g00370.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA10G36790.1 (Glycine max), 3'ss of exon 10
gtacgtaaggcactccagtgtgaatttgatacaatgatgcacagatgtgaatttgtaaaattttgattgaggaaagctaattttt-tgttttcaattaaaaacagATCAATATGAAAGGTTTGGATGGGATCCAGGGACCAATTTATGTTGGAACTGGCTGTGTCTTCAGACGGCAGGCACTCTATGGATATGATGCCCCTGTCA
||| ||||     |  ||||   |||| ||||     |||| | || | | | ||     ||| ||    | || |||||| | | | |  | |  |  | | |||| || ||||||||||| ||||| ||||| |||||||| ||||| |||||||| |||||||| || |||||||| ||||||||||||||||||||||  |
gtaagtaaaaatttgtagtg--gattt-atact----tgcatatattttactgtgc----tttgga---ggaaaggctaatctgtgtttcattatatttatatagATAAACATGAAAGGTTTAGATGGCATCCAAGGACCAATATATGTGGGAACTGGGTGTGTCTTTAGGCGGCAGGCGCTCTATGGATATGATGCCCCTGCTA

upper sequence: Vv18s0072g00370.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA16G28080.1 (Glycine max), 3'ss of exon 9
gtacgtaaggcactccagtgtgaatttgatacaatgatgcacagatgtgaatttgtaaaat-tttgattgaggaaagctaattttttgttttcaattaaaaacagATCAATATGAAAGGTTTGGATGGGATCCAGGGACCAATTTATGTTGGAACTGGCTGTGTCTTCAGACGGCAGGCACTCTATGGATATGATGCCCCTGTCA
||| |||||    | |  |     |||| | ||   || || | || | |  ||| |   |  ||    |   ||| ||||| |||   ||||||| |   | ||||||||||||||||||| ||||| ||||| |||||||| ||||| |||||||| |||||||||||  |||||||| | ||||||| ||||||||||    
gtaagtaagaacttgctattgttgtttg-tgcatgtatacatacatat-accttgcagtttgctttgaaggaaaaaactaatatttg--tttcaat-atgtatagATCAATATGAAAGGTTTAGATGGCATCCAAGGACCAATATATGTGGGAACTGGGTGTGTCTTCAGGAGGCAGGCATTTTATGGATGTGATGCCCCTACTT

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|351019334|gb|FQ429494.1|FQ429494
EST:     GGATTGATCGCAATGATAGATACTCAAATCGCAACGTTGTATTCTTTGAT                         ATCAATATGAAAGGTTTGGATGGGATCCAGGGACCAATTTATGTTGGAACT
genomic: GGATTGATCGCAATGATAGATACTCAAATCGCAACGTTGTATTCTTTGATgtacgtaagg ... ttaaaaacagATCAATATGAAAGGTTTGGATGGGATCCAGGGACCAATTTATGTTGGAACT
EST: gi|351026053|gb|FQ428065.1|FQ428065
EST:     GGATTGATCGCAATGATAGATACTCAAATCGCAACGTTGTATTCTTTGAT                         ATCAATATGAAAGGTTTGGATGGGATCCAGGGACCAATTTATGTTTGAACT
genomic: GGATTGATCGCAATGATAGATACTCAAATCGCAACGTTGTATTCTTTGATgtacgtaagg ... ttaaaaacagATCAATATGAAAGGTTTGGATGGGATCCAGGGACCAATTTATGTTGGAACT
EST: gi|351025958|gb|FQ427970.1|FQ427970
EST:     GGATTGATCGCAATGATAGATACTCAAATCGCAACGTTGTATTCTTTGAT                         ATCAATATGAAAGGTTTGGATGGGATCCAGGGACCAATTTATGTTGGAACT
genomic: GGATTGATCGCAATGATAGATACTCAAATCGCAACGTTGTATTCTTTGATgtacgtaagg ... ttaaaaacagATCAATATGAAAGGTTTGGATGGGATCCAGGGACCAATTTATGTTGGAACT
EST: gi|351024090|gb|FQ423513.1|FQ423513
EST:     GGATTGATCGCAATGATAGATACTCAAATCGCAACGTTGTATTCTTTGAT                         ATCAATATGAAAGGTTTGGATGGGATCCAGGGACCAATTTATGTTGGAACT
genomic: GGATTGATCGCAATGATAGATACTCAAATCGCAACGTTGTATTCTTTGATgtacgtaagg ... ttaaaaacagATCAATATGAAAGGTTTGGATGGGATCCAGGGACCAATTTATGTTGGAACT
EST: gi|349826424|gb|FQ418515.1|FQ418515
EST:     GGATTGATCGCAATGGTAGATACTCAGATCGCAACGTTGTATTCTTTGAT                         ATCAATATGAAAGGTTTGGATGGGATCCATGGACCAATTTATGTTGGAACT
genomic: GGATTGATCGCAATGATAGATACTCAAATCGCAACGTTGTATTCTTTGATgtacgtaagg ... ttaaaaacagATCAATATGAAAGGTTTGGATGGGATCCAGGGACCAATTTATGTTGGAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatttgtaaaattttgattgaggaaagctaattttttgttttcaattaaaaacagATCAATATGAAAGGTTTGGATGGGATCCAGGGACCAATTTATGTTGGAACTGGCTGTGTCTTCAGACGGCAGGCACTCTATGGATATGATGCCCCTGTCA
                         agctaat  putative branch site (score: 3)
                       aaagctaattttttgt  TA-rich tract