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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggtgttcctttctttattctgcttgttgaaatgcacctataattcttttaacataaatttttcaatatttttaatgatttaagaagcaaaatggcacataacttttcaaattgaaatgttggaacctttttccagGACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTTCACCGGAACTTCTTTGGCAGTCAG

Basic information

species Vitis vinifera
transcript Vv06s0004g03000.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g03000.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G023528_T03 (Zea mays), 3'ss of exon 3
gtgggtgttcctttctttattctgcttgttgaaatgcacctataattcttttaacataaatttttcaatatttttaatgatttaagaagcaaaatggcacataacttttcaaattgaaatgttggaacctttttccagGACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTTCACCGGAACTTCTTTGGCAGTCAG
                                             |   |    || ||||||    ||| ||   ||| | |     | |||   |   |||   | |||   |       | |      |||| ||| || |||||||| ||||||||||| ||||| ||  | ||||||||||| ||||| ||||| ||||| ||||||
--------------------------------------------gtgagtgggtcacaaattt----atacttgccatgttcttttttggaaaccagttaatagaatgtcacgatagttgaatagtgttgctttc-agGGCAAAAAACAGGGGGGCAGGAACTTGTTGGAGGATTAGATTGTACAGTCCACCGAAACTTTTTTGGGAGTCAG
















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|352794338|gb|FQ481569.1|FQ481569
EST:     TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTG                         GACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTCC
genomic: TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTGgtgggtgttc ... ctttttccagGACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTTC
EST: gi|351032258|gb|FQ460515.1|FQ460515
EST:     TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTG                         GACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTCC
genomic: TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTGgtgggtgttc ... ctttttccagGACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTTC
EST: gi|352799005|gb|FQ480854.1|FQ480854
EST:     TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTG                         GACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTCC
genomic: TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTGgtgggtgttc ... ctttttccagGACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTTC
EST: gi|349829976|gb|FQ420236.1|FQ420236
EST:     TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTG                         GACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTCC
genomic: TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTGgtgggtgttc ... ctttttccagGACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTTC
EST: gi|351027188|gb|FQ440056.1|FQ440056
EST:     TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTG                         GACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTCC
genomic: TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTGgtgggtgttc ... ctttttccagGACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTTC
EST: gi|352790573|gb|FQ478212.1|FQ478212
EST:     TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTG                         GACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTCC
genomic: TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTGgtgggtgttc ... ctttttccagGACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTTC
EST: gi|351039932|gb|FQ464970.1|FQ464970
EST:     TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTG                         GACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGACTGTACAGTCC
genomic: TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTGgtgggtgttc ... ctttttccagGACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTTC
EST: gi|122689691|gb|EC942857.1|EC942857
EST:     TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTG                         GACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTTC
genomic: TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTGgtgggtgttc ... ctttttccagGACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTTC
EST: gi|351038808|gb|FQ464674.1|FQ464674
EST:     TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTG                         GACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTCC
genomic: TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTGgtgggtgttc ... ctttttccagGACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTTC
EST: gi|349814306|gb|FQ398746.1|FQ398746
EST:     TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTG                         GACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTCC
genomic: TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTGgtgggtgttc ... ctttttccagGACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTTC
EST: gi|351039369|gb|FQ461236.1|FQ461236
EST:     TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTG                         GACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTCC
genomic: TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTGgtgggtgttc ... ctttttccagGACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTTC
EST: gi|122690972|gb|EC965184.1|EC965184
EST:     TTCTTGGCAAATAAGGC-GTTT                         GACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTTC
genomic: TTCTTGGCAAATAAGGCTGTTGgtgggtgttc ... ctttttccagGACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTTC
EST: gi|349824064|gb|FQ417451.1|FQ417451
EST:     TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTG                         GACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTCC
genomic: TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTGgtgggtgttc ... ctttttccagGACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTTC
EST: gi|351036688|gb|FQ457401.1|FQ457401
EST:     TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTG                         GACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTCC
genomic: TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTGgtgggtgttc ... ctttttccagGACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTTC
EST: gi|349815212|gb|FQ400367.1|FQ400367
EST:     TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTG                         GACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTCC
genomic: TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTGgtgggtgttc ... ctttttccagGACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTTC
EST: gi|351046692|gb|FQ453308.1|FQ453308
EST:     TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTG                         GACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTCC
genomic: TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTGgtgggtgttc ... ctttttccagGACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTTC
EST: gi|351041568|gb|FQ455784.1|FQ455784
EST:     TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTG                         GACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTCC
genomic: TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTGgtgggtgttc ... ctttttccagGACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTTC
EST: gi|351037793|gb|FQ464234.1|FQ464234
EST:     TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTG                         GACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTCC
genomic: TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTGgtgggtgttc ... ctttttccagGACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTTC
EST: gi|349828753|gb|FQ418488.1|FQ418488
EST:     TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTG                         GACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTCC
genomic: TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTGgtgggtgttc ... ctttttccagGACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTTC
EST: gi|351033877|gb|FQ462286.1|FQ462286
EST:     TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTG                         GACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTCC
genomic: TGTTTGGGGAACCTGTGCAGGACTTATCTTCTTGGCAAATAAGGCTGTTGgtgggtgttc ... ctttttccagGACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagaagcaaaatggcacataacttttcaaattgaaatgttggaacctttttccagGACAGAAAACAGGTGGGCAGGAACTAGTTGGGGGCCTTGATTGTACAGTTCACCGGAACTTCTTTGGCAGTCAG
               acataac  putative branch site (score: 3)
                                            cctttttcc  putative PPT
                 ataacttttcaaatt  TA-rich tract