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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggaacactccattgcttttaattggcatgcattaagcattatattcattgtaatttgctaagttgatatgtaatcagGTCCTATCCATGTTTTGGTTGTTCGAGGTTTGGATGAAAATGCTGATGAGGAAATGCTTCGTTATGAATTTTCTAAACATGCTCCAATCAAG

Basic information

species Vitis vinifera
transcript Vv02s0012g00870.t01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv02s0012g00870.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os02g07070.1 (Oryza sativa), 3'ss of exon 10
gttggaacactccattgcttttaattggcatgcattaagcattatattcattgtaatttgctaagttgata-tgtaatcagGTCCTATCCATGTTTTGGTTGTTCGAGGTTTGGATGAAAATGCTGATGAGGAAATGCTTCGTTATGAATTTTCTAAACATGCTCCAATCAAG
   | ||  |||  ||  | |    | | ||  |||||  | ||| ||    ||    |  | ||    ||   |  |||||||| |  |||||||| |||||||| ||| |||||||||||||||| |||||||||||||| ||||||||| | || ||||| || || |||
---gcaaagctctgttcttctattgtaggat-tattaaa-actattttgccagttgccttattagacactagcattttcagGTCCAACTCATGTTTTAGTTGTTCGTGGTCTGGATGAAAATGCTGACGAGGAAATGCTTCGATATGAATTTGCCAAGCATGCACCTATAAAG

upper sequence: Vv02s0012g00870.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G173777_T01 (Zea mays), 3'ss of exon 9
----gttggaacactccattgcttttaattggcat-gcattaagcattatattcattgtaatttgctaagttgatatgtaatcagGTCCTATCCATGTTTTGGTTGTTCGAGGTTTGGATGAAAATGCTGATGAGGAAATGCTTCGTTATGAATTTTCTAAACATGCTCCAATCAAG
    |||       ||||| | ||     ||| ||    | |   ||| |  |   | || || | |  | | || ||    ||||||| |  |||||||| |||||||| || |||||||||||||||||||||||||||||||| || |||||| |||| || || ||||| |||
gcaagttttgtgcttccatagtttcattctggaatcatgtgatatattgtgctgcct-tatttagttgtggtcatttg----cagGTCCAACTCATGTTTTAGTTGTTCGTGGCTTGGATGAAAATGCTGATGAGGAAATGCTTCGGTACGAATTTGCTAAGCACGCACCAATAAAG

upper sequence: Vv02s0012g00870.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G151614_T03 (Zea mays), 3'ss of exon 10
gttggaacactccattgcttttaattggcatgcattaagcattatattcattgtaatttgctaagttgatatgtaatcagGTCCTATCCATGTTTTGGTTGTTCGAGGTTTGGATGAAAATGCTGATGAGGAAATGCTTCGTTATGAATTTTCTAAACATGCTCCAATCAAG
|   |  || |   ||  | |  |||    || | || | ||| |  |   | || || | |  | ||  || |   ||||||| |  |||||||| |||||||| || || ||||||||||||||||||||||||||||| || |||||| |||| || || ||| | |||
gcaagttcagtt--ttattctggatttatctgaactatgtattgtgctgcct-tatttagtt--gctgtcatttg--cagGTCCAACTCATGTTTTAGTTGTTCGTGGCTTAGATGAAAATGCTGATGAGGAAATGCTTCGGTACGAATTTGCTAAGCACGCACCATTAAAG

upper sequence: Vv02s0012g00870.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA16G18030.1 (Glycine max), 3'ss of exon 8
gttggaacactccattgcttttaattggcatgcattaagcattatattcattgtaatttgctaagttgatatgtaatcagGTCCTATCCATGTTTTGGTTGTTCGAGGTTTGGATGAAAATGCTGATGAGGAAATGCTTCGTTATGAATTTTCTAAACATGCTCCAATCAAG
        | |  |   |   ||  || |||  ||     |||| || | ||||||||  |||     || || |||||||||| |  ||||| |||||||| || || |||||||||||||| |||||||||||||| || ||||| ||||| ||||||||||| || |||
-----gtaagtataactcccgtacctgacattgatgctttatta-atgctttgtaattaactat----atgtgcaatcagGTCCAACTCATGTGTTGGTTGTCCGTGGATTGGATGAAAATGCGGATGAGGAAATGCTCCGCTATGAGTTTTCCAAACATGCTCCGATTAAG

upper sequence: Vv02s0012g00870.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA08G35510.1 (Glycine max), 3'ss of exon 8
gttggaacactccattgcttttaattggcatgcattaagcattatattcattgtaatttgctaagttgatatgtaatcagGTCCTATCCATGTTTTGGTTGTTCGAGGTTTGGATGAAAATGCTGATGAGGAAATGCTTCGTTATGAATTTTCTAAACATGCTCCAATCAAG
        | |  |   | | ||  || |||  | |    |||| || |  |||||||  |||     || || |||||||||| |  |||||  | ||||| || || ||||||||||||||||||||||||||||| || ||||| ||||| ||||||||||| || |||
-----gtaagtataactcctgtacctgacattgactt--tatta-atgctctgtaattaactat----atgtgcaatcagGTCCAACTCATGTGCTTGTTGTCCGTGGATTGGATGAAAATGCTGATGAGGAAATGCTCCGCTATGAGTTTTCCAAACATGCTCCGATTAAG

upper sequence: Vv02s0012g00870.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT3G54230.2 (Arabidopsis thaliana), 3'ss of exon 10
---------------------------------------------------------gttggaac-----actccattgctttta-attggcatgcattaagcat-tatattcattgtaatttgctaagttgatatgtaatcagGTCCTATCCATGTTTTGGTTGTTCGAGGTTTGGATGAAAATGCTGATGAGGAAATGCTTCGTTATGAATTTTCTAAACATGCTCCAATCAAG
                                                         || | |||     |  |||| |  |||  | |    | |||     || ||  |    |  | | |||| | ||  | |     ||||||| |  |||||  ||||||| || || ||||||||| |||||||||||||||||||||| ||||||||||| ||||||||||| ||||||
gttctgatcagcatttttatttaagatgttttaaatttctttcttgagtcagaaacagtcgcaactgttaaggccatagtctttgtacttttctacatgccatatatacctaagatacattctgcttattttcttttc---cagGTCCAACTCATGTCCTGGTTGTACGTGGGTTGGATGAAGATGCTGATGAGGAAATGCTTCGGTATGAATTTTCCAAACATGCTCCTATCAAG

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|352774159|gb|FQ474682.1|FQ474682
EST:     TATAGCATCATCAAATGCAACATCGCTAGGAAAGAAAGGATCAGAGGCAG                         GTCCTATCCATGTTTTGGTTGTTCGAGGTTTGGATGAAAATGCTGATGAGG
genomic: TATAGCATCATCAAATGCAACATCGCTAGGAAAGAAAGGATCAGAGGCAGgttggaacac ... atgtaatcagGTCCTATCCATGTTTTGGTTGTTCGAGGTTTGGATGAAAATGCTGATGAGG
EST: gi|352772792|gb|FQ473830.1|FQ473830
EST:     TATAGCATCATCAAATGCAACATCGCTAGGAAAGAAAGGATCAGAGGCAG                         GTCCTATCCATGTTTTGGTTGTTCGAGGTTTGGATGAAAATGCTGATGAGG
genomic: TATAGCATCATCAAATGCAACATCGCTAGGAAAGAAAGGATCAGAGGCAGgttggaacac ... atgtaatcagGTCCTATCCATGTTTTGGTTGTTCGAGGTTTGGATGAAAATGCTGATGAGG
EST: gi|352764157|gb|FQ467727.1|FQ467727
EST:     TATAGCATCATCAAATGCAACATCGCTAGGAAAGAAAGGATCAGAGGCAG                         GTCCTATCCATGTTTTGGTTGTTCGAGGTTTGGATGAAAATGCTGATGAGG
genomic: TATAGCATCATCAAATGCAACATCGCTAGGAAAGAAAGGATCAGAGGCAGgttggaacac ... atgtaatcagGTCCTATCCATGTTTTGGTTGTTCGAGGTTTGGATGAAAATGCTGATGAGG
EST: gi|28962295|gb|CB341328.1|CB341328
EST:     TATAGCATCATCAAATGCAACATCGCTAGGAAAGAAAGGATCAGAGGCAG                         GTCCTATCCATGTTTTGGTTGTTCGAGGTTTGGATGAAAATGCTGATGAGG
genomic: TATAGCATCATCAAATGCAACATCGCTAGGAAAGAAAGGATCAGAGGCAGgttggaacac ... atgtaatcagGTCCTATCCATGTTTTGGTTGTTCGAGGTTTGGATGAAAATGCTGATGAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggcatgcattaagcattatattcattgtaatttgctaagttgatatgtaatcagGTCCTATCCATGTTTTGGTTGTTCGAGGTTTGGATGAAAATGCTGATGAGGAAATGCTTCGTTATGAATTTTCTAAACATGCTCCAATCAAG
                                      agttgat  putative branch site (score: 5)
               attatattcattgtaa  TA-rich tract