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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgatttcatctcaaatctgtgtctaaaattgtttattttatgaggttctcatgatgtgtaattatggtggttttatgcagAAGTTCAGTCCTTGGGAAGTTGTCAGGCATGATGTTGTATTTCCTGTCAGATTCTTTGGTCACGTTGCAGTCAGTCCCTCTGGATC

Basic information

species Vitis vinifera
transcript Vv06s0004g06020.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g06020.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os01g63270.1 (Oryza sativa), 3'ss of exon 3
------gtttgatttcatctcaaatctgtgtctaaaattgtttattttatgaggttctcatgatgtgtaattatggtggttttatgcagAAGTTCAGTCCTTGGGAAGTTGTCAGGCATGATGTTGTATTTCCTGTCAGATTCTTTGGTCACGTTGCAGTCAGTCCCTCTGGATC
        | || |  | | ||| |   | |||    |  |   |||    || | ||  ||||| |  |  ||| |  |||  | ||||||||||| || |||||| |||||||||||||  ||||||  ||  ||||||| ||||| |||||||   |    ||   ||||||
gtaccaactggaatgta-cacaagttcctctctcg--tcatcagtttctctagctgctgctgatgagccac-atgtttatttctttcagAAGTTCAGCCCATGGGAAATTGTCAGGCATGACATTGTATACCCAATCAGATTTTTTGGCCACGTTGAGATTTTGCCAGATGGATC
















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|122689432|gb|EC939313.1|EC939313
EST:     AAAGGATCACGAAGGAGGGCCAAGAAGAAATTGCCGAAGATTGGCTTGAG                         AAGTTCAGTCCTTGGGAAGTTGTCAGGCATGATGTTGTATTTCCTGTCAGA
genomic: AAAAGATCACGAAGGAGGGCCAAGAAGAAATTGCCGAAGATTGGCTTGAGgtttgatttc ... ttttatgcagAAGTTCAGTCCTTGGGAAGTTGTCAGGCATGATGTTGTATTTCCTGTCAGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaattgtttattttatgaggttctcatgatgtgtaattatggtggttttatgcagAAGTTCAGTCCTTGGGAAGTTGTCAGGCATGATGTTGTATTTCCTGTCAGATTCTTTGGTCACGTTGCAGTCAGTCCCTCTGGATC
 gtctaaa  putative branch site (score: 3)
      tttattttatga  TA-rich tract