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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttcagataaaaaaaaaaggacaaaaaaacctctcgaagaaaacgttctcctaatgcttgatcctcaaatgcaaatactaacaagctctttggttttacagTGATTCCATCTCCTGATGGCAAGAGAAGCATGATGAAACTTGCCCAGAGGATGGTCAACAATTTCTGTGCAAGCATCAGCACCTCCAATGGACACCGATG

Basic information

species Vitis vinifera
transcript Vv17s0053g00780.t01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0053g00780.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA09G29810.1 (Glycine max), 3'ss of exon 7
gtacttcagataaaaaaaaaaggacaaaaaaacctctcgaagaaaacgttctcctaatgcttgatcctcaaatgcaaatactaacaagctctttggttttacagTGATTCCATCTCCTGATGGCAAGAGAAGCATGATGAAACTTGCCCAGAGGATGGTCAACAATTTCTGTGCAAGCATCAGCACCTCCAATGGACACCGATG
                     | | | ||   | | |   |       || |  | |   ||  | |    ||   ||   ||   |    |     ||| |||||||||| |||||||| |||||||| ||||||||||||||||| || || ||||||| |||||| ||||||||||| ||  | ||   ||| ||  ||||
---------------------gtatataattgcat-taacaatttctattatgtttaattttcttgcaatgatctgaaccttattgattgttcaaaattttcagTGATTCCCTCTCCTGAGGGCAAGAGGAGCATGATGAAACTTGCACAAAGAATGGTCACCAATTTTTGTGCAAGCATTAGTGCATCAGCTGGTCATAGATG

upper sequence: Vv17s0053g00780.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA16G34350.1 (Glycine max), 3'ss of exon 7
gtacttcagataaaaaaaaaaggacaaaaaaacctctcgaagaaaac-gttctcctaatgcttgatcctcaaatgcaaatactaacaagctctttggttttacagTGATTCCATCTCCTGATGGCAAGAGAAGCATGATGAAACTTGCCCAGAGGATGGTCAACAATTTCTGTGCAAGCATCAGCACCTCCAATGGACACCGATG
                         | | ||     | ||  |   | ||  |  | |   ||  |  |   ||   ||   ||   |    |     ||| |||||||||| |||||||| |||||||| ||||||||||||||||| || || ||||||| |||||| ||||||||||| ||  | ||   ||| ||| ||||
-----------------------gtatataattgcattgacaacttctgtcatgtttaattttcttgttgtgatctgaaccttattgattgttcaaaattttcagTGATTCCTTCTCCTGAGGGCAAGAGGAGCATGATGAAACTTGCACAAAGAATGGTCACCAATTTTTGTGCAAGCATTAGTTCATCAGCTGGCCACAGATG

upper sequence: Vv17s0053g00780.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G06190.1 (Glycine max), 3'ss of exon 7
gtacttcagataaaaaaaaaaggacaaaaaaacctctcgaagaaaacgttctcctaatgcttgatcctcaaatgcaaatactaacaagctctttggttttacagTGATTCCATCTCCTGATGGCAAGAGAAGCATGATGAAACTTGCCCAGAGGATGGTCAACAATTTCTGTGCAAGCATCAGCACCTCCAATGGACACCGATG
                             | | | | | |       | ||   ||||| || ||  |    | |      ||||| |   |||   ||| |||| ||| |||||||||| |||||||| ||||||||||||||||| || |||||||||| |||||| ||||| | ||| ||||| || | ||| || |||||
---------------------------gtatatcaccc-atctttgtgatcatgtaatgtttaattattt--ttcttgcgataacacgggattttaattt-cagTAATTTCATCTCCTGAGGGCAAGAGGAGCATGATGAAACTTGCTCAAAGGATGGTCACCAATTTTTGTGCCAACATTAGCACATCAAGTGGCCATCGATG

upper sequence: Vv17s0053g00780.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA05G33520.1 (Glycine max), 3'ss of exon 7
gtacttcagataaaaaaaaaaggacaaaaaaacctctcgaagaaaacgttctcctaatgcttgatcctcaaatgcaaatactaacaagctctttggttttacagTGATTCCATCTCCTGATGGCAAGAGAAGCATGATGAAACTTGCCCAGAGGATGGTCAACAATTTCTGTGCAAGCATCAGCACCTCCAATGGACACCGATG
            | | ||| |  |   |     || |  ||   || ||      |||| || ||  ||    |  || ||      |   |||  |||  |||| ||| |||||||||| |||||||| ||||||||||||||||| || |||||||||| | |||| ||||| ||||| ||||| || | ||| || |||||
----------gtatataaatatcattcacccgtctttgtaatgcaatgt------aatgtttaattttcttgcgataacac-----gggattttaattt--cagTAATTTCATCTCCTGAGGGCAAGAGGAGCATGATGAAACTTGCTCAAAGGATGGTCACCGATTTTTGTGCCAGCATTAGCACATCAAGTGGCCATCGATG

upper sequence: Vv17s0053g00780.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT1G73360.1 (Arabidopsis thaliana), 3'ss of exon 7
gtacttcagataaaaaaaaaaggacaaaaaaacctctcgaagaaaacgttctcctaatgcttgatcctcaaatgcaaatactaacaagctctttggttttacagTGATTCCATCTCCTGATGGCAAGAGAAGCATGATGAAACTTGCCCAGAGGATGGTCAACAATTTCTGTGCAAGCATCAGCACCTCCAATGGACACCGATG
                      |  || | ||  |  |   |  |||   |||  | |  |  |  |   |   | || | |           |  |||| ||||||||| ||| || || || |||||||||||||||| |||||| ||||||||| ||| ||| | ||||  |||  ||||||  |||||       || | 
----------------------gtaaacataattttccattgcgaac---ctcaaagttttaaactccatataactaacatttgttgagcaact--ttttgcagTGATTCTATCACCGGAAGGGAAGAGAAGCATGATGAGACTTGCTCAGAGGATGATCAGCAACTACTGTTTAAGTGTCAGCAGATCCAACAACACACGCTC

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|27579995|gb|CB002690.1|CB002690
EST:     ATTTGCTTGTTTGATGGTTAAAGGAACTTCAACTCGGGATCTTGGAGGAG                         TAATTCCATCTCCTGATGGCAAGAGAAGCATGATGAAACTTGCCCAGAGGA
genomic: ATTTGCTTGTTTGATGGTTAAAGGAACTTCAACTCGGGATCTTGGAGGAGgtacttcaga ... ggttttacagTGATTCCATCTCCTGATGGCAAGAGAAGCATGATGAAACTTGCCCAGAGGA
EST: gi|71855079|gb|DT004134.1|DT004134
EST:     ATTTGCTTGTTTGATGGTTAAAGGAACTTCAACTCGGGATCTTGGAGGAG                         TAATTCCATCTCCTGATGGCAAGAGAAGCATGATGAAACTTGCCCAGAGGA
genomic: ATTTGCTTGTTTGATGGTTAAAGGAACTTCAACTCGGGATCTTGGAGGAGgtacttcaga ... ggttttacagTGATTCCATCTCCTGATGGCAAGAGAAGCATGATGAAACTTGCCCAGAGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctcctaatgcttgatcctcaaatgcaaatactaacaagctctttggttttacagTGATTCCATCTCCTGATGGCAAGAGAAGCATGATGAAACTTGCCCAGAGGATGGTCAACAATTTCTGTGCAAGCATCAGCACCTCCAATGGACACCGATG
                             tactaac  putative branch site (score: 0)
                                       ctctttg  putative PPT
                          aaatactaa  TA-rich tract