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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagataaagtttaaccaatactgatttatatttctttttattacactagaagttgatatctcctgaaacattgtggaattctttaacacaattttgcattcttcagATATGAGAGTTGCATTGATGTTGAGATACAGCAACGAGCTGTTGAATATTTTGCATTGAGTAGGAAAGGTGCGGCTTTAATGGATATATTGGCTGAAATG

Basic information

species Vitis vinifera
transcript Vv06s0061g01170.t01
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: LOC_Os03g02150.1 (Oryza sativa), 3'ss of exon 16
gtgagataaagtttaaccaatactgatttatatttctttttattacactagaagttgatatctcctgaaacattgtggaattctttaacacaattttgcatt-cttcagATATGAGAGTTGCATTGATGTTGAGATACAGCAACGAGCTGTTGAATATTTTGCATTGAGTAGGAAAGGTGCGGCTTTAATGGATATATTGGCTGAAATG
                    |||| ||||||  | | | |  | |   |  |      | |||   |  | ||      |||  || |||      | | ||  ||||| || |||||||  ||||||||||| ||||||||  |||| || |||||||||| | | || ||||||||||| |||||    ||  | || || ||||||
-------------------gtactaatttatcctacatctattgattgtgcagaaccttttctatggtcaaatc-----atttatttacatgtgcgtacgttatttcagGTACGAGAGTTATATTGATGTTGAAATACAGCAGAGAGCAGTCGAATATTTTGAACTAAGCAGGAAAGGTGCTGCTTTGGCAGACGTGTTAGCAGAAATG

upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA12G30520.1 (Glycine max), 3'ss of exon 16
gtgagataaagtttaaccaatactgatttatatttctttttattacactagaagttgatatctcctgaaacattgtggaattctttaacacaattttgcattcttcagATATGAGAGTTGCATTGATGTTGAGATACAGCAACGAGCTGTTGAATATTTTGCATTGAGTAGGAAAGGTGCGGCTTTAATGGATATATTGGCTGAAATG
      | |  ||| |||  | |  || |  | || || ||||||   |      |  | | |      |     | |  |  | |||| || ||   ||| ||| |||||||| || |  ||||| || || ||||||||| |||||||||||||||||||||||||||| |||||||| ||| |||||||||||||||| ||||||
-----gtgagattttacctctgc-aatgttcaatttttattattatgattttttctattgtttttcatgatgccataggttcttctaacccatttgctcat-ctttagATATGAAAGCTCAATTGAAGTCGAAATACAGCAAAGAGCTGTTGAATATTTTGCATTGAGTAGAAAAGGTGCAGCTCTAATGGATATATTGGCCGAAATG

upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA17G05410.1 (Glycine max), 3'ss of exon 16
gtgagataaagtttaaccaatactgatttatatttctttttattac-actagaagttgatatctcctgaaacattgtggaattctttaacacaattttgcattcttcagATATGAGAGTTGCATTGATGTTGAGATACAGCAACGAGCTGTTGAATATTTTGCATTGAGTAGGAAAGGTGCGGCTTTAATGGATATATTGGCTGAAATG
      | |  ||| |||  | |  || |  | ||  | ||||||  | |      |    | |  |   |  |  | |  |  | |||  || ||   ||| ||| |||||||| || |  ||||| || || ||||||||| || ||||||||||||||||||||||||| |||||||| ||| |||||||||||||||| ||||||
-----gtgagattttacctctgc-aatgttcaatttctattattatgaattttttctatggttttttatgatgtcataggttcttctaatccatttgctcat-ctttagATATGAAAGCTCAATTGAAGTCGAAATACAGCAAAGATCTGTTGAATATTTTGCATTGAGTAGAAAAGGTGCAGCTCTAATGGATATATTGGCCGAAATG

upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: AT5G22770.2 (Arabidopsis thaliana), 3'ss of exon 17
gtgagataa---agtttaaccaatactgatttatatttctttttattacactagaagttgatatctcctgaaacattgtggaattctttaacacaattttgcattcttcagATATGAGAGTTGCATTGATGTTGAGATACAGCAACGAGCTGTTGAATATTTTGCATTGAGTAGGAAAGGTGCGGCTTTAATGGATATATTGGCTGAAATG
||||||      |  ||         |  |  || ||| |  || | |   ||     ||   | |   | |||    || | ||   |||   | |||||  |||  ||||||||||||||| || ||||| |||||||| ||  | || ||||||||||||| ||||||||  |||||  | || || |||||| |||||||||| |||
gtgagacttgctaactttgttgtccttcctcaatgttt-tgcttgtcatcatatgtactgtcttttttggtaaccaaatgaagtttcctaaatgagttttgttttcg-cagATATGAGAGTTGTATCGATGTGGAGATACAACAGAGGGCAGTTGAATATTTTGAATTGAGTAAAAAAGGGCCTGCCTTTATGGATGTATTGGCTGAGATG

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|34543150|gb|CF511382.1|CF511382
EST:     CAACCCTCAGACCCAGAACTACAGAATCAGATTTGGGCAATATTCAGCAA                         ATATGAGAGTTGCATTGATGTTGAGATACAGCAACGAGCTGTTGAATATTT
genomic: CAACCCTCAGACCCAGAACTACAGAATCAGATTTGGGCAATATTCAGCAAgtgagataaa ... cattcttcagATATGAGAGTTGCATTGATGTTGAGATACAGCAACGAGCTGTTGAATATTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgatatctcctgaaacattgtggaattctttaacacaattttgcattcttcagATATGAGAGTTGCATTGATGTTGAGATACAGCAACGAGCTGTTGAATATTTTGCATTGAGTAGGAAAGGTGCGGCTTTAATGGATATATTGGCTGAAATG
                             ctttaac  putative branch site (score: 3)
                                             cattcttc  putative PPT
                              tttaacacaatttt  TA-rich tract