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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggttggttgttttggtcttgtattccattcatatacaatgctatgtgttttgtttcttcgtatgtgatacatgtatgacattattgagtgccattagattctatcatgtgataaccttttatagtttttcccaacagGGGAAAGGATAGTCTTGGTGAAGATGTTGTTAAACCATATACTCCAACCACTTTAGATTCAGATCTTGGATACTTTGAACTCGTTATAAAG

Basic information

species Vitis vinifera
transcript Vv06s0009g01710.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0009g01710.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA20G05640.1 (Glycine max), 3'ss of exon 2
-------------------------------------------------gtaggttg-gttgttttggtcttgtattccattcatatacaatgctatgtgttttgtttcttcgtatgtgatacatgtatgaca-ttattgagtgccattagattc--tatcatgtgataaccttttatagt--------ttttcccaacagGGGAAAGGATAGTCTTGGTGAAGATGTTGTTAAACCATATACTCCAACCACTTTAGATTCAGATCTTGGATACTTTGAACTCGTTATAAAG
                                                 ||   |   ||  |||| ||  | |||| | |   |  ||    | ||| ||||  |   ||  ||| | | |    ||| ||| | | ||| | |   | | | |  ||| |||   ||  | | |  | |        | |||    ||| || |||||||||||||||||||| ||||| |||||||||||||| || || || ||| | ||| |||||||||||||| | ||| | |||
gtttatattgctttatttctcttttccaattcatttgataatattattagtgcttaatgtcattttagtgctttatttcctat-tggaccccacaatgagtttattgagttactatatcacat---tatcacactcaatgaatacaccttggtgcattataatgcattattcatcttgaatgtctttggtcttctattcagAGGGAAGGATAGTCTTGGTGAAGAAGTTGTGAAACCATATACTCCTACAACATTGGATACTGATGTTGGATACTTTGAATTGGTTGTGAAG
















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|110720681|gb|EE096826.1|EE096826
EST:     ACACCAACTTCAGTGTTGGGACTTCCAATTGGACAACATATGAGTTGCAA                         GGGAAAGGATAGTCTTGGTGAAGATGTTGTTAAACCATATACTCCAACCAC
genomic: ACACCAACTTCAGTGTTGGGACTTCCAATTGGACAACATATGAGTTGCAAgtaggttggt ... ttcccaacagGGGAAAGGATAGTCTTGGTGAAGATGTTGTTAAACCATATACTCCAACCAC
EST: gi|71864812|gb|DT013867.1|DT013867
EST:     ACACCAACTTCAGTGTTGGGACTTCCAATTGGACAACATATGAGTTGCAG                         GGGAAAGGATAGTCTTGGTGAAGATGTTGTTAAACCATATACTCCAACCAC
genomic: ACACCAACTTCAGTGTTGGGACTTCCAATTGGACAACATATGAGTTGCAAgtaggttggt ... ttcccaacagGGGAAAGGATAGTCTTGGTGAAGATGTTGTTAAACCATATACTCCAACCAC
EST: gi|110688836|gb|EE067844.1|EE067844
EST:     ACACCAACTTCAGTGTTGGGACTTCCAATTGGACAACATATGAGTTGCAA                         GGGAAAGGATAGTCTTGGTGAAGATGTTGTTAAACCATATACTCCAACCAC
genomic: ACACCAACTTCAGTGTTGGGACTTCCAATTGGACAACATATGAGTTGCAAgtaggttggt ... ttcccaacagGGGAAAGGATAGTCTTGGTGAAGATGTTGTTAAACCATATACTCCAACCAC
EST: gi|110718332|gb|EE095045.1|EE095045
EST:     ACACCAACTTCAGTGTTGGGACTTCCAATTGGACAACATATGAGTTGCAA                         GGGAAAGGATAGTCTTGGTGAAGATGTTGTTAAACCATATACTCCAACCAC
genomic: ACACCAACTTCAGTGTTGGGACTTCCAATTGGACAACATATGAGTTGCAAgtaggttggt ... ttcccaacagGGGAAAGGATAGTCTTGGTGAAGATGTTGTTAAACCATATACTCCAACCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgagtgccattagattctatcatgtgataaccttttatagtttttcccaacagGGGAAAGGATAGTCTTGGTGAAGATGTTGTTAAACCATATACTCCAACCACTTTAGATTCAGATCTTGGATACTTTGAACTCGTTATAAAG
                          tgataac  putative branch site (score: 2)
                                          tttttccc  putative PPT
                                  ttttatagttttt  TA-rich tract