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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacacctcaatgtgttgtaaagtactcatatttattggtgatttaaattttattttgatcaatttaaaattgaggtacttctgcagCTTATAATAAAGCTCTTGAGGATGCTATTGCGGTGCTTGACAAGATTGCAGCCCCTGTTGATGTGAATGACC

Basic information

species Vitis vinifera
transcript Vv17s0000g08170.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0000g08170.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G069765_T03 (Zea mays), 3'ss of exon 6
gtaaca--cctcaat-----gtgttgtaaagtactcatatt-tattggtgatttaaattttattttgatcaatttaaaattgaggtacttctgcagCTTATAATAAAGCTCTTGAGGATGCTATTGCGGTGCTTGACAAGATTGCAGCCCCTGTTGATGTGAATGACC----------------------------
|||| |  |||  ||     ||  || |   ||||    |  ||   ||  |||| || |||  ||    || ||  | ||    ||  ||| |||| ||||  ||||| ||||| ||||||||||| || |||||||| ||||||    |||||||||||||||| |                            
gtaagattcctttattctcagtactgcactttactagggtaatacctgttttttatatcttaacttctgaaacttgtatttttctta--tcttcagCATATACCAAAGCGCTTGATGATGCTATTGCTGTACTTGACAAAATTGCAATGGCTGTTGATGTGAATGATCGTAAGTTTACAGTGAACATATATTTTGT

upper sequence: Vv17s0000g08170.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G175510_T01 (Zea mays), 3'ss of exon 6
gtaacacctcaatgtgttgtaaagtactcatatttattggtg----atttaaattttatt-ttgatcaatt------taaaattgaggtact----tctgcagCTTATAATAAAGCTCTTGAGGATGCTATTGCGGTGCTTGACAAGATTGCAGCCCCTGTTGATGTGAATGACC
|||| |   |  | |  |    ||||||    |||| | | |    | || | ||||||| ||||||  ||      |  || | |  |  |    ||| |||| || |  ||||| ||||| ||||||||||| || |||||||| ||||||   || |||||||||||||| |
gtaagattcctttattctc---agtactgcagtttactagggtaatacttgacttttattcttgatctcttgtcttctggaacttatattttctcatcttcagCATACACCAAAGCGCTTGATGATGCTATTGCTGTACTTGACAAAATTGCAATGCCGGTTGATGTGAATGATC

upper sequence: Vv17s0000g08170.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G069765_T05 (Zea mays), 3'ss of exon 6
gtaaca--cctcaat-----gtgttgtaaagtactcatatt-tattggtgatttaaattttattttgatcaatttaaaattgaggtacttctgcagCTTATAATAAAGCTCTTGAGGATGCTATTGCGGTGCTTGACAAGATTGCAGCCCCTGTTGATGTGAATGACC
|||| |  |||  ||     ||  || |   ||||    |  ||   ||  |||| || |||  ||    || ||  | ||    ||  ||| |||| ||||  ||||| ||||| ||||||||||| || |||||||| ||||||    |||||||||||||||| |
gtaagattcctttattctcagtactgcactttactagggtaatacctgttttttatatcttaacttctgaaacttgtatttttctta--tcttcagCATATACCAAAGCGCTTGATGATGCTATTGCTGTACTTGACAAAATTGCAATGGCTGTTGATGTGAATGATC

upper sequence: Vv17s0000g08170.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA09G28650.1 (Glycine max), 3'ss of exon 7
gtaacacctcaatgt----gttgtaaagtactcatatttattggtgatttaaat--tttattttgatcaatttaaaattgaggtacttctgcagCTTATAATAAAGCTCTTGAGGATGCTATTGCGGTGCTTGACAAGATTGCAGCCCCTGTTGATGTGAATGACC
|||||     | |||    |||    |||  |  | |        |  | ||||  ||||| || || |||   | | |   ||| | ||||||| ||||| |||||| | |||||||||||||| || |||||||| ||||||   ||| ||||||   | || |
gtaacttaatagtgttactgttaatcagtgtttctctcctacaaggtataaaattgtttatattaatgaatgctacaattttgtaat-ctgcagCATATAACAAAGCTTTGGAGGATGCTATTGCTGTCCTTGACAAAATTGCAATGCCTATTGATGCTCAGGATC

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|352773628|gb|FQ472410.1|FQ472410
EST:     TGCGGAAGCTTTCATAGACAAAAACTTTCACCCTACAGTCATATGTCGAG                         CTTATAATAAAGCTCTTGAGGATGCTATTGCGGTGCTTGACAAGATTGCAG
genomic: TGCGGAAGCTTTCATAGACAAAAACTTTCACCCTACAGTCATATGTCGAGgtaacacctc ... acttctgcagCTTATAATAAAGCTCTTGAGGATGCTATTGCGGTGCTTGACAAGATTGCAG
EST: gi|352764588|gb|FQ472945.1|FQ472945
EST:     TGCGGAAGCTTTCATAGACAAAAACTTTCACCCTACAGTCATATGTCGAG                         CTTATAATAAAGCTCTTGAGGATGCTATTGCGGTGCTTGACAAGATTGCAG
genomic: TGCGGAAGCTTTCATAGACAAAAACTTTCACCCTACAGTCATATGTCGAGgtaacacctc ... acttctgcagCTTATAATAAAGCTCTTGAGGATGCTATTGCGGTGCTTGACAAGATTGCAG
EST: gi|352769725|gb|FQ468653.1|FQ468653
EST:     TGCGGAAGCTTTCATAGACAAAAACTTTCACCCTACAGTCATATGTCGAG                         CTTATAATAAAGCTCTTGAGGATGCTATTGCGGTGCTTGACAAGATTGCAG
genomic: TGCGGAAGCTTTCATAGACAAAAACTTTCACCCTACAGTCATATGTCGAGgtaacacctc ... acttctgcagCTTATAATAAAGCTCTTGAGGATGCTATTGCGGTGCTTGACAAGATTGCAG
EST: gi|71857425|gb|DT006480.1|DT006480
EST:     CGCGGAAGCTTTCATAGACAAAAACTTTCACCCTACAGTCATATGTCGAG                         CTTATAATAAAGCTCTTGAGGATGCTATTGCGGTGCTTGA
genomic: TGCGGAAGCTTTCATAGACAAAAACTTTCACCCTACAGTCATATGTCGAGgtaacacctc ... acttctgcagCTTATAATAAAGCTCTTGAGGATGCTATTGCGGTGCTTGA
EST: gi|71857213|gb|DT006268.1|DT006268
EST:     CGCGGAAGCTTTCATAGACAAAAACTTTCACCCTACAGTCATATGTCGAG                         CTTATAATAAAGCTCT
genomic: TGCGGAAGCTTTCATAGACAAAAACTTTCACCCTACAGTCATATGTCGAGgtaacacctc ... acttctgcagCTTATAATAAAGCTCT
EST: gi|71857633|gb|DT006688.1|DT006688
EST:     CGCGGAAGCTTTCATAGACAAAAACTTTCACCCTACAGTCATATGTCGAG                         CTTATAATAAAGCTCTTGAGGATGCTATTGCGGTGCTTGACAAGATTGCAG
genomic: TGCGGAAGCTTTCATAGACAAAAACTTTCACCCTACAGTCATATGTCGAGgtaacacctc ... acttctgcagCTTATAATAAAGCTCTTGAGGATGCTATTGCGGTGCTTGACAAGATTGCAG
EST: gi|71857432|gb|DT006487.1|DT006487
EST:     CGCGGAAGTTTTCATAGACAAAAACTTTCACCCTACAGTCATATGTCGAG                         CTTATAATAAAGCTCTTGAGGATGCTATTGCGGTGCTTGACAAGATTGCAG
genomic: TGCGGAAGCTTTCATAGACAAAAACTTTCACCCTACAGTCATATGTCGAGgtaacacctc ... acttctgcagCTTATAATAAAGCTCTTGAGGATGCTATTGCGGTGCTTGACAAGATTGCAG
EST: gi|71859366|gb|DT008421.1|DT008421
EST:     CGCGGAAGCTTTCATAGACAAAAACTTTCACCCTACAGTCATATGTCGAG                         CTTATAATAAAGCTCTTGAGGATGCTATTGCGGTGCT
genomic: TGCGGAAGCTTTCATAGACAAAAACTTTCACCCTACAGTCATATGTCGAGgtaacacctc ... acttctgcagCTTATAATAAAGCTCTTGAGGATGCTATTGCGGTGCT
EST: gi|71857184|gb|DT006239.1|DT006239
EST:     CGCGGAAGCTTTCATAGACAAAAACTTTCACCCTACAGTCATATGTCGAG                         CTTATAATAAAGCTCTTGAGGATGCTATTGCGGTGCTTGACAAGATTGCAG
genomic: TGCGGAAGCTTTCATAGACAAAAACTTTCACCCTACAGTCATATGTCGAGgtaacacctc ... acttctgcagCTTATAATAAAGCTCTTGAGGATGCTATTGCGGTGCTTGACAAGATTGCAG
EST: gi|71856945|gb|DT006000.1|DT006000
EST:     CGCGGAAGCTTTCATAGACAAAAACTTTCACCCTACAGTCATATGTCGAG                         CTTATAATAAAGCTCTTGAGGATGCTATTGCGGTGCTTGACAAGATTGCAG
genomic: TGCGGAAGCTTTCATAGACAAAAACTTTCACCCTACAGTCATATGTCGAGgtaacacctc ... acttctgcagCTTATAATAAAGCTCTTGAGGATGCTATTGCGGTGCTTGACAAGATTGCAG
EST: gi|71857006|gb|DT006061.1|DT006061
EST:     CGCGGAAGCTTTCATAGACAAAAACTTTCACCCTACAGTCATATGTCGAG                         CTTATAATAAAGCTCTTGAGGATGCTATTGCGGTGCTTGACAAGATTGCAG
genomic: TGCGGAAGCTTTCATAGACAAAAACTTTCACCCTACAGTCATATGTCGAGgtaacacctc ... acttctgcagCTTATAATAAAGCTCTTGAGGATGCTATTGCGGTGCTTGACAAGATTGCAG
EST: gi|71858194|gb|DT007249.1|DT007249
EST:     CGCGGAAGCTTTCATAGACAAAAACTTTCACCCTACAGTCATATGTCGAG                         CTTATAATAAAGCTCTTGAGGATGCTATTGCGGTGCTTG
genomic: TGCGGAAGCTTTCATAGACAAAAACTTTCACCCTACAGTCATATGTCGAGgtaacacctc ... acttctgcagCTTATAATAAAGCTCTTGAGGATGCTATTGCGGTGCTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttattggtgatttaaattttattttgatcaatttaaaattgaggtacttctgcagCTTATAATAAAGCTCTTGAGGATGCTATTGCGGTGCTTGACAAGATTGCAGCCCCTGTTGATGTGAATGACC
                     ttttgat  putative branch site (score: 4)
                                            tacttct  putative PPT
         atttaaattttatttt  TA-rich tract