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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtatttttatgactttcttttttctttgatgcatgtttgccttttttctgaatgttgtgctgctgtgactgatggcatgtatactaatgtgtcatttgttgtagGGCTCTTCAAAACAACAACTTTTATGGAACGATTCCTTCAGAATTGGGAAATTGCACAGAGTTGCAAGCATT

Basic information

species Vitis vinifera
transcript Vv02s0087g00170.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv02s0087g00170.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA09G34940.3 (Glycine max), 3'ss of exon 4
gtatgtatttttatgactttcttttttctttgatgcatgtttgccttttttctgaatgttgtgctgctgtgac-tgatggcatgtatactaatgtgtcatttgttgtagGGCTCTTCAAAACAACAACTTTTATGGAACGATTCCTTCAGAATTGGGAAATTGCACAGAGTTGCAAGCATT
|||||||||||||  | |||  ||          |||| | | | ||| || | | |  | || | |  | || | || || | | |  | ||     || |||||||| |||||||| ||||||||||| ||||| || ||||| |||||||||||||||||||| || ||| | | | |
gtatgtatttttaaaattttgatt----------gcatatat-cttttattttaagttatttgatacatttacgtaattgcgtatttcatgataatgtatctgttgtagTGCTCTTCATAACAACAACTTCTATGGGACAATTCCATCAGAATTGGGAAATTGCACTGAATTGGAGGGAAT

upper sequence: Vv02s0087g00170.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA01G35390.1 (Glycine max), 3'ss of exon 3
gtatgtatttttatgactttcttttttctttgatgcatgtttgccttttttctgaatgttgtgctgctgtgac-tgatggcatgtatactaatgtgtcatttgttgtagGGCTCTTCAAAACAACAACTTTTATGGAACGATTCCTTCAGAATTGGGAAATTGCACAGAGTTGCAAGCATT
|||||||||||||  | |||  ||          |||| | | | ||| || | | |  | || | || | |  | || || | | |  | ||     || |||||||| |||||||| ||||||||||| |||||  | |||||  |||| |||||||||||||| || ||| | | | |
gtatgtatttttaaaattttgatt----------gcatatat-cttttattttaagttatttgatacttttatgtaattgcttatttcatgataatgtatctgttgtagTGCTCTTCATAACAACAACTTCTATGGGTCAATTCCACCAGAGTTGGGAAATTGCACTGAATTGGAGGGAAT
















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|122689621|gb|EC941876.1|EC941876
EST:     AGTGGATCAATTTCACCTGATATTGGGAAGCTAGAGCTCTTGAAGCTTTT                         GGCTCTTCAAAACAACAATTTTTATGGAACGATTCCTTCAGAATTGGGAAA
genomic: AGTGGATCAATTTCACCTGATATTGGGAAGCTAGAGCTCTTGAAGCTTTTgtatgtattt ... tttgttgtagGGCTCTTCAAAACAACAACTTTTATGGAACGATTCCTTCAGAATTGGGAAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaatgttgtgctgctgtgactgatggcatgtatactaatgtgtcatttgttgtagGGCTCTTCAAAACAACAACTTTTATGGAACGATTCCTTCAGAATTGGGAAATTGCACAGAGTTGCAAGCATT
                                tactaat  putative branch site (score: 1)
                              tatactaat  TA-rich tract