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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcatgatagcaagttgcactatattttaaaatttgatctccgagtttagtgctgacttctatattgtcatgcagTGCTGTACTTGCTCATATTATTTTAAGGGAGAAGCTACACATTTTTGGGATTCTTGGTTGTGTTCTTTGTGTTGTGGGTTCTACAACAATTGTTCTTCAT

Basic information

species Vitis vinifera
transcript Vv12s0035g00720.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv12s0035g00720.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA16G00560.1 (Glycine max), 3'ss of exon 3
gcatgatagcaag-ttgcactatattttaaaatttgatctccgagtttagtgctgacttct-atattgtcatgcagTGCTGTACTTGCTCATATTATTTTAAGGGAGAAGCTACACATTTTTGGGATTCTTGGTTGTGTTCTTTGTGTTGTGGGTTCTACAACAATTGTTCTTCAT
||||||||  ||  ||   || ||  || |   ||||     |   | | |  ||| || | |  ||  | ||||||||||  |||||||||||||||||| |||||| |||||| |||||||| ||||| ||||||||| | ||||||||||| ||||| ||||||||| | |||
gcatgataaaaaaatttagctttaaattgatgcttgactcttgg--taaattttgatttttgacgtttgcttgcagTGCTGCTCTTGCTCATATTATTTTACGGGAGAGGCTACATATTTTTGGAATTCTCGGTTGTGTTTTGTGTGTTGTGGGATCTACGACAATTGTTTTGCAT

upper sequence: Vv12s0035g00720.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA12G28940.1 (Glycine max), 3'ss of exon 3
gcatgatagcaagttgcactatattttaaaatttgatctccgagtttagtgctgacttct-atattgtcatgcagTGCTGTACTTGCTCATATTATTTTAAGGGAGAAGCTACACATTTTTGGGATTCTTGGTTGTGTTCTTTGTGTTGTGGGTTCTACAACAATTGTTCTTCAT
||||||||  || ||   ||  |  || |   ||||     |   | | | |||| || | || ||  | ||||||||||  |||||||||||||||||| |||||| |||||| |||||||| ||||||||||| ||| | ||||| ||||| ||||||||||||||| | |||
gcatgataaaaattta-gcttcaaattgatgcttgactcatgg--taaattctgatttgtgatgtttgcttgcagTGCTGCTCTTGCTCATATTATTTTACGGGAGAGGCTACATATTTTTGGAATTCTTGGTTGCGTTTTGTGTGTCGTGGGATCTACAACAATTGTTTTGCAT
















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|161715837|gb|FC067434.1|FC067434
EST:     GCACCAGCTATTCTGGTCACTCCTCTTGGTGCACTCAGCATTATTATCAG                         TGCTGTACTTGCTCATATTATTTTAAGGGAGAAGCTACACATTTTTGGGAT
genomic: GCACCAGCTATTCTGGTCACTCCTCTTGGTGCACTCAGCATTATTATCAGgcatgatagc ... tgtcatgcagTGCTGTACTTGCTCATATTATTTTAAGGGAGAAGCTACACATTTTTGGGAT
EST: gi|27755040|gb|CB035795.1|CB035795
EST:     GCACCAGCTATTCTGGTCACTCCTCTTGGTGCACTCAGCATTATTATCAG                         TGCTGTACTTGCTCATATTATTTTAAGGGAGAAGCTACACATTTTTGGGAT
genomic: GCACCAGCTATTCTGGTCACTCCTCTTGGTGCACTCAGCATTATTATCAGgcatgatagc ... tgtcatgcagTGCTGTACTTGCTCATATTATTTTAAGGGAGAAGCTACACATTTTTGGGAT
EST: gi|161706210|gb|FC054968.1|FC054968
EST:     GCACCAGCTATTCTGGTCACTCCTCTTGGTGCACTCAGCATTATTATCAG                         TGCTGTACTTGCTCATATTATTTTAAGGGAGAAGCTACACATTTTTGGGAT
genomic: GCACCAGCTATTCTGGTCACTCCTCTTGGTGCACTCAGCATTATTATCAGgcatgatagc ... tgtcatgcagTGCTGTACTTGCTCATATTATTTTAAGGGAGAAGCTACACATTTTTGGGAT
EST: gi|161717532|gb|FC066885.1|FC066885
EST:     GCACCAGCTATTCTGGTCACTCCTCTTGGTGCACTCAGCATTATTATCAG                         TGCTGTACTTGCTCATATTATTTTAAGGGAGAAGCTACACATTTTTGGGAT
genomic: GCACCAGCTATTCTGGTCACTCCTCTTGGTGCACTCAGCATTATTATCAGgcatgatagc ... tgtcatgcagTGCTGTACTTGCTCATATTATTTTAAGGGAGAAGCTACACATTTTTGGGAT
EST: gi|110713706|gb|EE089862.1|EE089862
EST:     GCACCAGCTATTCTGGTCACTCCTCTTGGTGCACTCAGCATTATTATCAG                         TGCTGTACTTGCTCATATTATTTTAAGGGAGAAGCTACACATTTTTGGGAT
genomic: GCACCAGCTATTCTGGTCACTCCTCTTGGTGCACTCAGCATTATTATCAGgcatgatagc ... tgtcatgcagTGCTGTACTTGCTCATATTATTTTAAGGGAGAAGCTACACATTTTTGGGAT
EST: gi|33403284|gb|CF208911.1|CF208911
EST:     GCACCAGCTATTCTGGTCACTCCTCTTGGTGCACTCAGCATTATTATCAG                         TGCTGTACTTGCTCATATTATTTTAAGGGAGAAGCTACACATTTTTGGGAT
genomic: GCACCAGCTATTCTGGTCACTCCTCTTGGTGCACTCAGCATTATTATCAGgcatgatagc ... tgtcatgcagTGCTGTACTTGCTCATATTATTTTAAGGGAGAAGCTACACATTTTTGGGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatattttaaaatttgatctccgagtttagtgctgacttctatattgtcatgcagTGCTGTACTTGCTCATATTATTTTAAGGGAGAAGCTACACATTTTTGGGATTCTTGGTTGTGTTCTTTGTGTTGTGGGTTCTACAACAATTGTTCTTCAT
                              tgctgac  putative branch site (score: 2)
     tttaaaatttgatct  TA-rich tract