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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattcatactcaattgttttgtttttcgttttttgttcgttgttttagtacttgttgatgcatgggtttttgaaaattatagGTAAGGCTACGTTTGGGGAGCAAGAGTGGTACTTCTTCAGTCCTAGGGACCGGAAATACCCCAACGGCGCACGGCCTAATCGGGCTGCGACTTCTGGGTA

Basic information

species Vitis vinifera
transcript Vv00s0375g00040.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s0375g00040.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G179885_T04 (Zea mays), 3'ss of exon 2
----------------gtaattcatactcaattgttttgtttttcgttttttgttcgttgttttagtacttgttgatgcatgggtttttgaaaattat-agGTAAGGCTACGTTTGGGGAGCAAGAGTGGTACTTCTTCAGTCCTAGGGACCGGAAATACCCCAACGGCGCACGGCCTAATCGGGCTGCGACTTCTGGGTA
                 ||  |   |  ||    | | |  || |  || |    |  ||| |     | ||   |||||||| |   |       || || |||||| || || || ||||| ||||||||||||||||| || |||||||| || ||||||||||| || ||||| ||  |||| ||||| || || ||
ctttgcatacatactgctagcttccatgcatgcatgt-gccttactattctcacgcactgtgtggccgcctggacatgcatggttggatactctggatcagATAAGGCGACATTCGGCGAGCAGGAGTGGTACTTCTTCAGCCCGAGGGACCGCAAGTACCCCAACGGAGCGCGGCCGAACAGGGCGGCGACGTCCGGCTA
















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|71860374|gb|DT009429.1|DT009429
EST:     CATCATAGCAGACGTGGATCTTTACAAGTTTGATCCATGGGAGCTACCAA                         GTAAGGCCACGTTTGGGGAGCAAGAGTGGTACTTCTTCAGTCCTAGGGACC
genomic: CATCATAGCAGACGTGGATCTTTACAAGTTTGATCCATGGGAGCTACCAAgtaattcata ... aaaattatagGTAAGGCTACGTTTGGGGAGCAAGAGTGGTACTTCTTCAGTCCTAGGGACC
EST: gi|71859908|gb|DT008963.1|DT008963
EST:     CATCATAGCAGACGTGGATCTTTACAAGTTTGATCCATGGGAGCTACCAA                         GTAAGGCCACGTTTGGGGAGCAAGAGTGGTACTTCTTCAGTCCTAGGGACC
genomic: CATCATAGCAGACGTGGATCTTTACAAGTTTGATCCATGGGAGCTACCAAgtaattcata ... aaaattatagGTAAGGCTACGTTTGGGGAGCAAGAGTGGTACTTCTTCAGTCCTAGGGACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttttttgttcgttgttttagtacttgttgatgcatgggtttttgaaaattatagGTAAGGCTACGTTTGGGGAGCAAGAGTGGTACTTCTTCAGTCCTAGGGACCGGAAATACCCCAACGGCGCACGGCCTAATCGGGCTGCGACTTCTGGGTA
                         tgttgat  putative branch site (score: 4)
                                       tttttgaaaattata  TA-rich tract