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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcattaatatctttgtatacagtcaagtgtggcactcagatattgttattgctgatacttttattttgtcattcttttttcagATTCCCAAATATGGGATTTTTGAGAATATAAACTCACTGAAGGAACTAGCGCAAATGCCTCAATGGACTGTTCAGAAACCTCTCCGAGTTGCTACTGGTT

Basic information

species Vitis vinifera
transcript Vv12s0035g00760.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv12s0035g00760.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G36070.1 (Glycine max), 3'ss of exon 4
gtaagtcattaatatctttgtatacagtca----agtgtggcact--cagatattgttattgctgatacttttattttgtcattcttttttcagATTCCCAAATATGGGATTTTTGAGAATATAAACTCACTGAAGGAACTAGCGCAAATGCCTCAATGGACTGTTCAGAAACCTCTCCGAGTTGCTACTGGTT
|| ||| |  | |||  |  | || ||  |    | | ||   ||  |||   ||  ||      ||  | |    ||  |  | || |||||||||||| ||||||| || ||||| ||| |||| |||||| | || || ||  |||||||||||||||| |   | || ||||| ||||||||||||||||
gtgagttaaaattatgatgttgtaaagctactagattctgctcctgtcagtgttttgtacaatcaattgtctggagttccctctgttatttcagATTCCCCAATATGGAATATTTGAAAATGTAAATTCACTGGACGAGCTTGCAAAAATGCCTCAATGGACAGAAGAAAAGCCTCTACGAGTTGCTACTGGTT

upper sequence: Vv12s0035g00760.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA03G33360.1 (Glycine max), 3'ss of exon 4
gtaagtcattaatatctttgtatacagtcaagtgtggcactcagatattgttattgctgatacttt---tattttgtcat-tcttttttcagATTCCCAAATATGGGATTTTTGAGAATATAAACTCACTGAAGGAACTAGCGCAAATGCCTCAATGGACTGTTCAGAAACCTCTCCGAGTTGCTACTGGTT
                  ||  |  |    |   ||  ||| ||||  || |  ||    |  |||    | |   |  | | || |||||||||||| ||||||| || ||||| ||| |||| ||| || | || || ||  |||||||||||||||| |   | || ||||| ||||||||||||||||
-----------------gtgagtttaaattatgatgttact-agattctgctcctgtcattgttttgtacaatcaattgtctgttatttcagATTCCCCAATATGGAATATTTGAAAATGTAAATTCAGTGGACGAGCTTGCAAAAATGCCTCAATGGACAGAAGAAAAGCCTCTACGAGTTGCTACTGGTT

upper sequence: Vv12s0035g00760.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G58080.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaagtcattaatatctttgtatacagtcaagtgtggcactcagat-attgttattgctgatacttttattttgtcattcttt-tttcagATTCCCAAATATGGGATTTTTGAGAATATAAACTCACTGAAGGAACTAGCGCAAATGCCTCAATGGACTGTTCAGAAACCTCTCCGAGTTGCTACTGGTT
           ||   ||  | ||  ||    |  ||  ||||| | |||    | | || |  | | ||| | ||     |  |  |||||||| || |||||||| |||||||||||||| || |||||||| |||||||||||||| ||||||| ||   ||| |||  | ||  | |||||||| |
---------gtatgctttaatctattgt-ggttaaggtcctcaggtcattaccgtggatggttttctgattgtatctcaaatggtcacagATTCCAAACTATGGGATATTTGAGAATATAAATTCTCTGAAGGAGCTAGCGCAAATGCCCCAATGGAGTGAAGAGAGACCCTTACGCTTAGCTACTGGCT

upper sequence: Vv12s0035g00760.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G09795.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaagtcattaatatctttgtatacagtcaagtgtggcactcagatattgttattgctgatacttttattttgtcattctt---ttttcagATTCCCAAATATGGGATTTTTGAGAATATAAACTCACTGAAGGAACTAGCGCAAATGCCTCAATGGACTGTTCAGAAACCTCTCCGAGTTGCTACTGGTT
            ||  ||   ||  | |  ||| ||   || |   ||   ||  | |||    || |||      ||| |    |||||||| ||||| ||||| || |||||||||||||| || |||||||| ||||| ||||||||||||||||| |   | | |||| | ||||||||||| || |
-----------gtacgttcaaatctattgtagt-tgtggcttat-catcaatacagatgacttcttgattgctcttttcatatgatttcagATACCCAATTATGGAATATTTGAGAATATAAAATCTCTGAAGGAGCTAGCACAAATGCCTCAATGGACCGAGGAAAGACCTTTACGAGTTGCTACAGGAT

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|110708044|gb|EE085133.1|EE085133
EST:     TCATTGCTCATGATGCACTTGAGTACGGGGATTGCCGGTTATCCCTCGCA                         ATTCCCAAATATGGGATTTTTGAGAATATAAACTCACTGAAGGAACTAGCA
genomic: TCATTGCTCATGATGCACTTGAGTACGGGGATTGCCGGTTATCCCTCGCAgtaagtcatt ... cttttttcagATTCCCAAATATGGGATTTTTGAGAATATAAACTCACTGAAGGAACTAGCG
EST: gi|71859709|gb|DT008764.1|DT008764
EST:     TCATTGCTCATGATGCACTTGAGTACGGGGATTGCCGGTTATCCCTCGCA                         ATTCCCAAATATGGGATTTTTGAGAATATAAACTCACTGAAGGAACTAG
genomic: TCATTGCTCATGATGCACTTGAGTACGGGGATTGCCGGTTATCCCTCGCAgtaagtcatt ... cttttttcagATTCCCAAATATGGGATTTTTGAGAATATAAACTCACTGAAGGAACTAG
EST: gi|71857490|gb|DT006545.1|DT006545
EST:     TCATTGCTCATGATGCACTTGAGTACGGGGATTGCCGGTTATCCCTCGCA                         ATTCCCAAATATGGGATTTTTGAGAATATAAACTCACTGAAGGAACTAGCG
genomic: TCATTGCTCATGATGCACTTGAGTACGGGGATTGCCGGTTATCCCTCGCAgtaagtcatt ... cttttttcagATTCCCAAATATGGGATTTTTGAGAATATAAACTCACTGAAGGAACTAGCG
EST: gi|110692902|gb|EE068663.1|EE068663
EST:     TCATTGCTCATGATGCACTTGAGTACGGGGATTGCCGGTTATCCCTCGCA                         ATTCCCAAATATGGGATTTTTGAGAATATAAACTCACTGAAGGAACTAGCG
genomic: TCATTGCTCATGATGCACTTGAGTACGGGGATTGCCGGTTATCCCTCGCAgtaagtcatt ... cttttttcagATTCCCAAATATGGGATTTTTGAGAATATAAACTCACTGAAGGAACTAGCG
EST: gi|30134547|gb|CB919885.1|CB919885
EST:     TCATTGCTCATGATGCACTTGAGTACGGGGATTGCCGGTTATCCCTCGCA                         ATTCCCAAATATGGGATTTTTGAGAATATAAACTCACTGAAGGAACTAGCG
genomic: TCATTGCTCATGATGCACTTGAGTACGGGGATTGCCGGTTATCCCTCGCAgtaagtcatt ... cttttttcagATTCCCAAATATGGGATTTTTGAGAATATAAACTCACTGAAGGAACTAGCG
EST: gi|30132474|gb|CB917813.1|CB917813
EST:     TCATTGCTCATGATGCACTTGAGTACGGGGATTGCCGGTTATCCCTCGCA                         ATTCCCAAATATGGGATTTTTGAGAATATAAACTCACTGAAGGAACTAGCG
genomic: TCATTGCTCATGATGCACTTGAGTACGGGGATTGCCGGTTATCCCTCGCAgtaagtcatt ... cttttttcagATTCCCAAATATGGGATTTTTGAGAATATAAACTCACTGAAGGAACTAGCG
EST: gi|30125501|gb|CB910840.1|CB910840
EST:     TCATTGCTCATGATGCACTTGAGTACGGGGATTGCCGGTTATCCCTCGCA                         ATTCCCAAATATGGGATTTTTGAGAATATAAACTCACTGAAGGAACTAGCG
genomic: TCATTGCTCATGATGCACTTGAGTACGGGGATTGCCGGTTATCCCTCGCAgtaagtcatt ... cttttttcagATTCCCAAATATGGGATTTTTGAGAATATAAACTCACTGAAGGAACTAGCG
EST: gi|110708441|gb|EE085986.1|EE085986
EST:     TCATTGCTCATGATGCACTTGAGTACGGGGATTGCCGGTTATCCCTCGCA                         ATTCCCAAATATGGGATTTTTGAGAATATAAACTCACTGAAGGAACTAGCA
genomic: TCATTGCTCATGATGCACTTGAGTACGGGGATTGCCGGTTATCCCTCGCAgtaagtcatt ... cttttttcagATTCCCAAATATGGGATTTTTGAGAATATAAACTCACTGAAGGAACTAGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtggcactcagatattgttattgctgatacttttattttgtcattcttttttcagATTCCCAAATATGGGATTTTTGAGAATATAAACTCACTGAAGGAACTAGCGCAAATGCCTCAATGGACTGTTCAGAAACCTCTCCGAGTTGCTACTGGTT
                     tgctgat  putative branch site (score: 3)
                             cttttattttgtcatt  CT-rich tract
                              ttttattttgtcattc  TA-rich tract