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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttccatatttgcagtcacaactacttcatttggatttttgcaccccccaccaacttttatttttattttttaataattctttgttcttttgtggtgtgaaatgcagTTTTATTTTGAAGGGGAGAAGGGCTTAGAGACATTCAAGAACCAAGCTGACAGTTTCATATGTTCAGTGCTTCCTGATAGCCCCTACCACCAGATTTACC

Basic information

species Vitis vinifera
transcript Vv04s0008g02020.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0008g02020.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA06G05930.1 (Glycine max), 3'ss of exon 5
gttccatatt-tgcagtcacaactacttcatttggatttttgcaccccccaccaactt-ttatttttat-tttttaataattctttgttcttttgtggtgt-gaaatgcagTTTTATTTTGAAGGGGAGAAGGGCTTAGAGACATTCAAGAACCAAGCTGACAGTTTCATATGTTCAGTGCTTCCTGATAGCCCCTACCACCAGATTTACC
|||  || || |    |||  |||  ||| ||   || |||      | |  |   |  ||| ||| ||  ||    ||| || |  ||      || | | |     |||||  |||| |||||  | |||   || || |||||||| | ||| || || ||||||||||| || || || |||||||| ||||||||||||||| |  
gtttaattttctatcatcattactctttctttctcatctttatgtgtcactgcgcttaattaatttaatgcttcctctaagtcctaattaacaaatgatatcgttgctcagTTACATTTCGAAGGTCAAAAGAATTTGGAAACATTCAAAAGCCATGCCGAAAGTTTCATATGCTCTGTCCTACCTGATAGTCCCTACCACCAGATTAAAT
















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|122689427|gb|EC939263.1|EC939263
EST:     AGTTTAGTTGGGACCTTAAGTATGCTGGAGCCCAAATCCTCCTCTCTAAG                         TTTTATTTTGAAGGGGAGAAGGGTTTAGAGACATTCAAGAACCAAGCTGAC
genomic: AGTTTAGTTGGGACCTTAAGTATGCTGGAGCCCAAATCCTCCTCTCTAAGgttccatatt ... tgaaatgcagTTTTATTTTGAAGGGGAGAAGGGCTTAGAGACATTCAAGAACCAAGCTGAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacttttatttttattttttaataattctttgttcttttgtggtgtgaaatgcagTTTTATTTTGAAGGGGAGAAGGGCTTAGAGACATTCAAGAACCAAGCTGACAGTTTCATATGTTCAGTGCTTCCTGATAGCCCCTACCACCAGATTTACC
                ttttaat  putative branch site (score: 3)
     ttatttttatttttta  TA-rich tract