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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtttttgtcatgttgatttacctttcttgctttattactgaaatgataagcatcccagcactttaatctttttcttttttttttctgtatttttgctttcctttcttttttgtcaatttagGTACTTCAGAGTTCTTGTCAGTATGGACATGAGCCTACATTCAATGGAAGTCGTTAACAGGCTTACTACAGCGGTTGAACTTCCCACCGAATTTGTACAC

Basic information

species Vitis vinifera
transcript Vv07s0130g00310.t01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0130g00310.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os11g13694.1 (Oryza sativa), 3'ss of exon 9
gtatgtt--tttgtcatgttgatttacctttcttgctttattactgaaatgataagcatcccagcactttaatctttttcttttttttttctgtatttttgctttcctttcttttttgtcaatttagGTACTTCAGAGTTCTTGTCAGTATGGACATGAGCCTACATTCAATGGAAGTCGTTAACAGGCTTACTACAGCGGTTGAACTTCCCACCGAATTTGTACAC
||||||   || | | ||| | ||||  | | ||| ||| ||| | || |  |||            |||| | | ||||| |  |      || ||  |    | | || || |||| || ||     ||||     |||||||    ||||| ||||||||||||||||||||||| || |||||||| |||||||| || || || ||  | | |||  | || 
gtatgtagattagccttgtcg-tttat-tctattgttttcttatttaattactaa------------tttactatgtttctctactcacaacgtcttactcacatgcctttttctttgacagTT-----ACTTTGATATTCTTGTGCACATGGAAATGAGCCTACATTCAATGGAAGTTGTAAACAGGCTCACTACAGCAGTAGATCTACCACCAGGATTCATTCAT

upper sequence: Vv07s0130g00310.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os12g09610.1 (Oryza sativa), 3'ss of exon 8
gtatgtttttgtcatgttgatttacctttcttgctttattactgaaatgataagcatcccagcactttaatctttttcttttttttttctgtatttttgctttcctttcttttttgtcaatttagGTACTTCAGAGTTCTTGTCAGTATGGACATGAGCCTACATTCAATGGAAGTCGTTAACAGGCTTACTACAGCGGTTGAACTTCCCACCGAATTTGTACAC
                    | |  || | |   ||  || || |    ||| |    ||| ||||||              |||||  | ||||||   | |      ||| || |    | || |||||    ||||||||   |||||| |||||||| ||||| |||||||| || |||||||||||||| || || ||||| || || || ||||| || 
-------------------gtatgtctgtttcttttctttgct-agtcaatatgatcaccaacacttt--------------tttttaatatattttaattgtgacccttttctttt----tcagTTACTTAGATGTTCTTGTGCATATGGAGATGAGCCTGCATTCTATGGAAGTTGTAAACAGGCTTACTACTGCTGTAGAACTCCCGACAGAGTTTGTCCAT

upper sequence: Vv07s0130g00310.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA10G00610.3 (Glycine max), 3'ss of exon 9
gtatgtttttgtcatgttgatttacctttcttgctttattactgaaatgataagcatcccagcactttaatctttttcttttttttttctgtatttttgctttcctttcttttttgtcaatttagGTACTTCAGAGTTCTTGTCAGTATGGACATGAGCCTACATTCAATGGAAGTCGTTAACAGGCTTACTACAGCGGTTGAACTTCCCACCGAATTTGTACAC
                    | | | ||| |  || |||||     || ||  |      || || |  |  ||   || |   | || | |  |||   | |  || ||| ||| |  ||  || ||||||| ||| ||||||| |||||||||||| ||||||||||||||||| || ||||||||||| ||||| |||||||| ||  |  ||||  | |||
-------------------gtatgcatttttc-ctctattat----attatctgtgctttagtacat--acattgccctatcgctattattttctttatttctatttgcttatttatggatacagATACTTCACAGTACTTGTCAATATGGACATGAGTCTACATTCAATGGAAGTTGTGAACAGGCTTACAACAGCAGTTGAACTACCGTCTCAATTCATTCAC

upper sequence: Vv07s0130g00310.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA02G00750.2 (Glycine max), 3'ss of exon 9
gtatgtttttgtcatgttgatttacctttcttgctttattactgaaatgataagcatcccagcactttaatctttttcttttttttttctgtatttttgctttcctttcttttttgtcaatttagGTACTTCAGAGTTCTTGTCAGTATGGACATGAGCCTACATTCAATGGAAGTCGTTAACAGGCTTACTACAGCGGTTGAACTTCCCACCGAATTTGTACAC
                    | | | || ||| || |||||     || ||  |    | || || |  |  ||   || |   | || | |  |||   | |  || ||| ||| |  ||  || ||||| | ||| ||||||| |||||||||||| ||||||||||||||||| || |||||||| || ||||| |||||||| ||  |  ||||  | |||
-------------------gtatgcatt-cttcctctattat----attatctgtgctctagtacat--acattaccctatcgctattattttctttatttctatttgcttatttatggatacagATACTTTACAGTACTTGTCAATATGGACATGAGTCTACATTCAATGGAAGTTGTGAACAGGCTGACAACAGCTGTTGAACTACCATCTCAATTCATTCAC

upper sequence: Vv07s0130g00310.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT5G18420.1 (Arabidopsis thaliana), 3'ss of exon 9
gtatgtttttgtcatgttgatttacctttcttgctttattactgaaatgataagcatcccagcactttaatct-ttttcttttttttttctgtatttttgctttcctttcttttt-tgtcaatttagGTACTTCAGAGTTCTTGTCAGTATGGACATGAGCCTACATTCAATGGAAGTCGTTAACAGGCTTACTACAGCGGTTGAACTTCCCACCGAATTTGTACAC
                                            || | || | | |    |  |    || |  ||||        || |   ||||    |     |||     ||    || || || |    || ||| |  | ||||||||||||||| || ||||||||||| || || ||||| || || || |||||||||||||  || ||  |||  
------------------------------------------gtaagtcatcaccttattggttccaccatttactttcgaccaaaattataacttttaaagtgggaatctaagaatgcttcttcagCTATTATGAAGCTCTAGGAAATATGGACATGAGCCTGCACTCAATGGAAGTTGTGAATAGGCTCACAACTGCAGTTGAACTTCCCAAGGACTTCATACGG

upper sequence: Vv07s0130g00310.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: EFJ17749 (Selaginella moellendorffii), 3'ss of exon 4
gtatgtttttgtcatgttgatttacctttcttgctttattactgaaatgataagcatcccagcactttaatctttttcttttttttttctgtatttttgctttcctttcttttttgtcaatttagGTACTTCAGAGTTCTTGTCAGTATGGACATGAGCCTACATTCAATGGAAGTCGTTAACAGGCTTACTACAGCGGTTGAACTTCCCACCGAATTTGTACAC
                                                                   |||     | | |     || |    | |||   |  |||   ||| |        ||||| ||||  |  ||||| || ||||||||||||||||| || ||||||||||| ||  | || || || || ||  |  | ||   ||||| | | || 
------------------------------------------------------------------gtaagtacgtccgtggagattacaagttgtttatctcgcttcggtttctac------agGTATTTCAACGCGCTTGTAAGCATGGACATGAGCCTACACTCCATGGAAGTCGTCAATCGCCTGACAACGGCCGTGCAGATCCCTGTCGAATATATCCAT

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|110427602|gb|EC994050.1|EC994050
EST:     ATTGCGGTTGAAGTTCTCATTAAGTTGATTAATTCAGCTGAAATTGAGGA                         GTACTTCAGAGTTCTTGTCAGTATGGACATGAGCCTACATTCAATGGAAGT
genomic: ATTGCGGTTGAAGTTCTCATTAAGTTGATTAATTCAGCTGAAATTGAGGAgtatgttttt ... gtcaatttagGTACTTCAGAGTTCTTGTCAGTATGGACATGAGCCTACATTCAATGGAAGT
EST: gi|110358574|gb|EC922883.1|EC922883
EST:     ATTGCGGTTGAAGTTCTCATTAAGTTGATTAATTCAGCTGAAATTGAGGA                         GTACTTCAGAGTTCTTGTCAGTATGGACATGAGCCTACATTCAATGGAAGT
genomic: ATTGCGGTTGAAGTTCTCATTAAGTTGATTAATTCAGCTGAAATTGAGGAgtatgttttt ... gtcaatttagGTACTTCAGAGTTCTTGTCAGTATGGACATGAGCCTACATTCAATGGAAGT
EST: gi|110362733|gb|EC926283.1|EC926283
EST:     ATTGCGGTTGAAGTTCTCATTAAGTTGATTAATTCAGCTGAAATTGAGGA                         GTACTTCAGAGTTCTTGTCAGTATGGACATGAGCCTACATTCAATGGAAGT
genomic: ATTGCGGTTGAAGTTCTCATTAAGTTGATTAATTCAGCTGAAATTGAGGAgtatgttttt ... gtcaatttagGTACTTCAGAGTTCTTGTCAGTATGGACATGAGCCTACATTCAATGGAAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctttttcttttttttttctgtatttttgctttcctttcttttttgtcaatttagGTACTTCAGAGTTCTTGTCAGTATGGACATGAGCCTACATTCAATGGAAGTCGTTAACAGGCTTACTACAGCGGTTGAACTTCCCACCGAATTTGTACAC
       cttttttttttctgta  CT-rich tract
     ttcttttttttttctg  TA-rich tract