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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttaggcataacttatgggtcttactcttttgtatgtttgtattgttattagttcgtctcattattttctcaacatgacagGCACGTGCTGTATCTACTGATGGACTGAGACCAAGTTTCTACACAATTAATGCAGTGGTTTATGCCATTCAG

Basic information

species Vitis vinifera
transcript Vv01s0010g01740.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0010g01740.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G14530.1 (Arabidopsis thaliana), 3'ss of exon 4
gttaggcataacttatgggtcttactcttttgtatgtttgtattgttattagttcgtctcattattttctc-aacatgacagGCACGTGCTGTATCTACTGATGGACTGAGACCAAGTTTCTACACAATTAATGCAGTGGTTTATGCCATTCAG
        |||    ||  |||   | | || |   |||   || |  |   ||  | |   ||||| ||| | | || ||||||||||||||||| |||||||||||||| |||||||||| ||||||||||||||| || || |  ||||||
-------gtaaaccttgattctgtatatattttcaatttagtttttcctgcattgttgttgatatttactctatcttggcagGCACGTGCTGTATCGACTGATGGACTGAGGCCAAGTTTCTTCACAATTAATGCAGTTGTATACGTAATTCAG

upper sequence: Vv01s0010g01740.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT2G02180.1 (Arabidopsis thaliana), 3'ss of exon 4
------gttaggcataacttatgggtcttactcttt-tgtatgtttgtattgttatta-gttcgtctcattattttctcaacatgacagGCACGTGCTGTATCTACTGATGGACTGAGACCAAGTTTCTACACAATTAATGCAGTGGTTTATGCCATTCAG
        ||   |  |  ||||||| |   | ||| |  ||| || | | ||| | |  ||   || |  | | | |  |   ||||||| ||||| ||||| ||||||||||| || ||||| |||| ||||||||||||||| || ||||   |||||
gtagtttctaatgagtatctatgggtttctttttttgtcaatgcttctttggttttgatattttacttaacactcttttgattggacagGCGCGTGCAGTATCGACTGATGGACTCAGGCCAAGCTTCTTCACAATTAATGCAGTTGTATATGTAGTTCAG
















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|349816624|gb|FQ399613.1|FQ399613
EST:     TCACGACCTATGCTCTTTTGGTATTGTTCTGGGCAGAAATATACTATCAG                         GCACGTGCTGTATCTACTGATGGACTGAGACCAAGTTTCTACACAATTAAT
genomic: TCACAACCTATGCTCTTTTGGTATTGTTCTGGGCAGAAATATACTATCAGgttaggcata ... aacatgacagGCACGTGCTGTATCTACTGATGGACTGAGACCAAGTTTCTACACAATTAAT
EST: gi|110411137|gb|EC976839.1|EC976839
EST:     TCACAACCTATGCTCTTTTGGTATTGTTCTGGGCAGAAATATACTATCAG                         GCACGTGCTGTATCTACTGATGGACTGAGACCAAGTTTCTACACAATTAAT
genomic: TCACAACCTATGCTCTTTTGGTATTGTTCTGGGCAGAAATATACTATCAGgttaggcata ... aacatgacagGCACGTGCTGTATCTACTGATGGACTGAGACCAAGTTTCTACACAATTAAT
EST: gi|349823327|gb|FQ402526.1|FQ402526
EST:     TCACGACCTATGCTCTTTTGGTATTGTTCTGGGCAGAAATATACTATCAG                         GCACGTGCTGTATCTACTGATGGACTGAGACCAAGTTTCTACACAATTAAT
genomic: TCACAACCTATGCTCTTTTGGTATTGTTCTGGGCAGAAATATACTATCAGgttaggcata ... aacatgacagGCACGTGCTGTATCTACTGATGGACTGAGACCAAGTTTCTACACAATTAAT
EST: gi|161718299|gb|FC064760.1|FC064760
EST:     TCACGACCTATGCTCTTTTGGTATTGTTCTGGGCAGAAATATACTATCAG                         GCACGTGCTGTATCTACTGATGGACTGAGACCAAGTTTCTACACAATTAAT
genomic: TCACAACCTATGCTCTTTTGGTATTGTTCTGGGCAGAAATATACTATCAGgttaggcata ... aacatgacagGCACGTGCTGTATCTACTGATGGACTGAGACCAAGTTTCTACACAATTAAT
EST: gi|294965642|gb|GW837241.1|GW837241
EST:     TCACAACCTATGCTCTTTTGGTATTGTTCTGGGCAGAAATATACTATCAG                         GCACGTGCTGTATCTACTGATGGACTGAGACCAAGTTTCTACACAATTAAT
genomic: TCACAACCTATGCTCTTTTGGTATTGTTCTGGGCAGAAATATACTATCAGgttaggcata ... aacatgacagGCACGTGCTGTATCTACTGATGGACTGAGACCAAGTTTCTACACAATTAAT
EST: gi|349809177|gb|FQ398950.1|FQ398950
EST:     TCACGACCTATGCTCTTTTGGTATTGTTCTGGGCAGAAATATACTATCAG                         GCACGTGCTGTATCTACTGATGGACTGAGACCAAGTTTCTACACAATTAAT
genomic: TCACAACCTATGCTCTTTTGGTATTGTTCTGGGCAGAAATATACTATCAGgttaggcata ... aacatgacagGCACGTGCTGTATCTACTGATGGACTGAGACCAAGTTTCTACACAATTAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttttgtatgtttgtattgttattagttcgtctcattattttctcaacatgacagGCACGTGCTGTATCTACTGATGGACTGAGACCAAGTTTCTACACAATTAATGCAGTGGTTTATGCCATTCAG
                                      ttttctca  CT-rich tract
          tttgtattgttatta  TA-rich tract