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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtacccttgttttcttaatttagcattcaatacttcaattaatttatgccttagtggcatttcagtacttaatgctttaatcggtactatgggtttcatgtctcaacagtgtttgattgtgttctgattcttattgtttggcagATCCTTGATGCTGATGATGGTCGTCGGCTAGAGAGTTCTACAGGACGTGTGGCAACTCGAGATATTGTACAGTTTGTTCCCATGAGGGAAGTGCGTG

Basic information

species Vitis vinifera
transcript Vv14s0030g00540.t01
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0030g00540.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA19G42790.1 (Glycine max), 3'ss of exon 14
gtgtacccttgttttcttaatttagcattcaatacttcaattaatttatgccttagtggcatttca-gtacttaatgctttaatcggtactatgggtttcatgtctcaacagtgtttgattgtgttctgattcttattgt--ttggcagATCCTTGATGCTGATGATGGTCGTCGGCTAGAGAGTTCTACAGGACGTGTGGCAACTCGAGATATTGTACAGTTTGTTCCCATGAGGGAAGTGCGTG
                                | || | | | ||   || |  |||    || |    ||   ||   ||| |  |||  |||    |  | | |    ||||   || ||  |  ||| | |  ||||   | |||| | || ||||||||| |||| |||||| | ||||||||||| || ||||| || || |||||||| || || ||||| || ||||| ||||| |   
-------------------------------gtcctactactcatccttgtccaagtttttttccttagaccccattaattatttagtagcatgaaaatgctttgttgttagtga--gaatgaataatgaatatacttgtggattgcagGTGCTGGATGCTGATAATGGGCGTCGGTTGGAGAGTTCTACTGGTCGTGTAGCTACACGAGATATGGTGCAATTTGTGCCTATGAGAGAAGTACAAA

upper sequence: Vv14s0030g00540.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT1G08860.1 (Arabidopsis thaliana), 3'ss of exon 14
gtgtacccttgttttcttaatttagcattcaatacttcaattaatttatgccttagtggcatttcagtacttaatgctttaatcggtactatgggtttcatgtctcaacagtgtttg-attgtgttctgattcttattgtttggcagATCCTTGATGCTGATGATGGTCGTCGGCTAGAGAGTTCTACAGGACGTGTGGCAACTCGAGATATTGTACAGTTTGTTCCCATGAGGGAAGTGCGTG
                                                 |    |||    |||    |  | | | ||||        |||  || || | |   || |||         |||   |||   |     | |  ||||| |||||||||||| ||||||| ||| ||||||||||||| || ||  | || || || || || || || ||||| || ||||  ||  | | | 
-------------------------------------------------gtacaagttttgttttgtcaagttaggtttta--------tatctgtctctt-tgcaaatagtaaacatgcagtgacttgaccttgtaaatatttcagATGCTTGATGCTGATAATGGTCGGCGGTTAGAGAGTTCTACTGGTCGAATAGCTACACGGGACATCGTTCAATTTGTCCCTATGAAAGACATCCATA
















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|110362594|gb|EC926138.1|EC926138
EST:     TATCAATTCTGATAGTTGGAGTGGGAGGAGCAGATTTTAAACAAATGGAG                         ATCCTTGATGCTGATGATGGTCGTCGGTTAGAGAGTTATACAGGACGTGTG
genomic: TATCAATTCTGATAGTTGGAGTGAGAGGAGCAGATTTTAAACAAATGGAGgtgtaccctt ... tgtttggcagATCCTTGATGCTGATGATGGTCGTCGGCTAGAGAGTTCTACAGGACGTGTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgggtttcatgtctcaacagtgtttgattgtgttctgattcttattgtttggcagATCCTTGATGCTGATGATGGTCGTCGGCTAGAGAGTTCTACAGGACGTGTGGCAACTCGAGATATTGTACAGTTTGTTCCCATGAGGGAAGTGCGTG
                                ttctgat  putative branch site (score: 3)
                                      ttcttatt  CT-rich tract
                                     attcttatt  TA-rich tract