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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacctgtttcctaacataaaacttctcccagtagggggaaaaataagaaacggttccactcatttgaagttttttatcatgtagACCATCAGGCCTTTGTGTGGACACTTGGATTTCTCATTTGCATCTGCATGGCATCCTGATGGCAATATATTTGCCACTGGGAACCAGGACAAGACTTGCC

Basic information

species Vitis vinifera
transcript Vv00s1206g00020.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s1206g00020.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA15G12970.1 (Glycine max), 3'ss of exon 6
----------------------------------------gtacctgtttcctaa------cataaaacttctcccagtaggggg----------aaaaataagaaacggtt--ccactcatttgaagttt--tttatcatgtagACCATCAGGCCTTTGTGTGGACACTTGGATTTCTCATTTGCATCTGCATGGCATCCTGATGGCAATATATTTGCCACTGGGAACCAGGACAAGACTTGCC
                                        |||  | | || ||       | | ||     |    || |||||          ||   | ||||   ||      || |||| || |||  ||     ||||||| ||||  |||||  ||||||||||||||||||||||||||||||||||||||||||||||| | |||||||| ||||||||||| ||||| || || |
gttggcatgttctgtttgtctatatcataggttcctggctgtatatttctcttaggactctcttgaatgggatgagggtggggggtggatgtgccaagtgtgagaagttgtgaatgtctaattttaattttgattgtctttgtagACTATCACACCTTTTCGTGGACACTTGGATTTCTCATTTGCATCTGCATGGCATCCTGATGGCCACATATTTGCTACTGGGAACCAAGACAAAACATGTC

upper sequence: Vv00s1206g00020.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA15G12980.1 (Glycine max), 3'ss of exon 10
----------------------------------gtacctgtttcctaacataaaacttctccca------------gtaggggg----------aaaaataagaaacggtt--ccactcatttgaagttt--tttatcatgtagACCATCAGGCCTTTGTGTGGACACTTGGATTTCTCATTTGCATCTGCATGGCATCCTGATGGCAATATATTTGCCACTGGGAACCAGGACAAGACTTGCC
                                   |  |||| |  |    |||    ||||               || |||||          ||   | |||||  ||      || |||| || |||  ||     ||||||| ||||  |||||  ||||||||||||||||||||||||||||||||||||||||||||||| | |||||||| ||||||||||| ||||| || || |
gttggcatgttctgtttgtctatatcataggttcctggctgtatatttctctaaggactctcttgaatgggatgagggtggggggtggatgtgccaagtgtgagaaattgtgaatgtctaattttaattttgattgtctttgtagACTATCACACCTTTTCGTGGACACTTGGATTTCTCATTTGCATCTGCATGGCATCCTGATGGCCACATATTTGCTACTGGGAACCAAGACAAAACATGTC

upper sequence: Vv00s1206g00020.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G40060.1 (Glycine max), 3'ss of exon 9
-----gtac-ctgtttcctaacataaaacttctcccagtagggggaaaaataagaaacggttccactcatttgaagttttttatcatgtagACCATCAGGCCTTTGTGTGGACACTTGGATTTCTCATTTGCATCTGCATGGCATCCTGATGGCAATATATTTGCCACTGGGAACCAGGACAAGACTTGCC
     |||| |||||   |    | | |  |  |    ||||          ||  |   |   | | |||| || |||  |    |||||||  ||| |||||| |||||||||||||||| ||||||||||||||| |||||||||||||||  ||| ||||| ||||||||||| ||||| || ||||
gtggtgtactctgttgatttgtgttacaaattcc---ataggtactgtttgcaggtaaattatgaataatttaaattttggttctttgtagACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGGCATCCTGATGGCCGTATTTTTGCTACTGGGAACCAAGACAAAACATGCC

upper sequence: Vv00s1206g00020.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA09G02070.1 (Glycine max), 3'ss of exon 9
--------------------------------------gtacctgtttcctaa------cataaaacttctcccagtagggggaa--------aaataagaaacggttcca----ctcatttgaagttt--tttatcatgtagACCATCAGGCCTTTGTGTGGACACTTGGATTTCTCATTTGCATCTGCATGGCATCCTGATGGCAATATATTTGCCACTGGGAACCAGGACAAGACTTGCC
                                       ||  | ||||  ||      | | ||     |   ||| |||||          || |  |||| | |   |    || |||| || |||  ||     ||||||| ||||  |||||  ||||||||||||||||||||||||| |||||||||||||||||||||   |||||||| ||||||||||| ||||| || || |
gtgggctgctactgtttgtctatattataggttcctggctatatatttctcaaaggactcttgaatgggatgagagtggggggtggatgtgccaagtgtgaaaagttgtgaatatctaattttaattttggttgtctttgtagACTATCACACCTTTACGTGGACACTTGGATTTCTCATTTGCTTCTGCATGGCATCCTGATGGCCGCATATTTGCTACTGGGAACCAAGACAAAACATGTC

upper sequence: Vv00s1206g00020.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G00740.3 (Glycine max), 3'ss of exon 9
---gtac-ctgtttcctaacataaaacttctcccagtagggggaaaaataagaaacggttccactcatttgaagttttttatcatgtagACCATCAGGCCTTTGTGTGGACACTTGGATTTCTCATTTGCATCTGCATGGCATCCTGATGGCAATATATTTGCCACTGGGAACCAGGACAAGACTTGCC
   ||   || |||       |   ||   | || ||| |           |  |   |   | | |||| || |||  |    |||||||  ||| |||||| |||||||||||||||| ||||||||| |||||||||||||||||||||   || ||||| ||||||||||| ||||| || ||||
gtggtgttctcttttggtttgtgttacaaattcc-gtatgcattgtgtctgggtaaattatgaataatttaaattttggttctttgtagACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCGTCTGCATGGCATCCTGATGGCCGCATTTTTGCTACTGGGAACCAAGACAAAACATGCC

upper sequence: Vv00s1206g00020.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA14G08730.1 (Glycine max), 3'ss of exon 6
-----gtacctgtttccta--acataaaacttctcccagtaggggga---aaaataagaaacggttc-----cactcatttgaagttttttatcatgtagACCATCAGGCCTTTGTGTGGACACTTGGATTTCTCATTTGCATCTGCATGGCATCCTGATGGCAATATATTTGCCACTGGGAACCAGGACAAGACTTGCC
      ||   || |   |  ||  || | ||  |    ||| |  |     || ||  | |  |        |   || |  | | | ||    ||||| | |||  | || |  ||||||||| |||| | |  | ||||||||||||||||||||||||  | | |||||||||||||| |   ||||| || || |
agctattattagtctaaaagtacgcaataattaacttgctagtgtaattttgaacaactaccaatataaaaatataaatattgaatgtcttgatttgtagGCTATCGCGACTCTAAGTGGACACTCGGATATGTTGTATGCATCTGCATGGCATCCTGATGGATACAAATTTGCCACTGGGAGCGTAGACAAAACATGTC

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|33409772|gb|CF215399.1|CF215399
EST:     TTGTTGGTGACAACCCAGATGGAATACTGGTGGACTCTCAGACTGGAAAG                         ACCATCAGGCCTTTGTGTGGACACTTGGATTTCTCATTTGCATCTGCATGG
genomic: TTGTTGGTGACAACCCAGATGGAATACTGGTGGACTCTCAGACTGGAAAGgtacctgttt ... tatcatgtagACCATCAGGCCTTTGTGTGGACACTTGGATTTCTCATTTGCATCTGCATGG
EST: gi|349827954|gb|FQ422822.1|FQ422822
EST:     TTGTTGGTGACAACCCAGATGGAATATTGGTGGACTCTCAGACTGGAAAG                         ACCATCAGGCCTTTGTGTGGACACTTGGATTTCTCATTTGCATCAGCATGG
genomic: TTGTTGGTGACAACCCAGATGGAATACTGGTGGACTCTCAGACTGGAAAGgtacctgttt ... tatcatgtagACCATCAGGCCTTTGTGTGGACACTTGGATTTCTCATTTGCATCTGCATGG
EST: gi|294964449|gb|GW838252.1|GW838252
EST:     TTGTTGGTGACAACCCAGATGGAATATTGGTGGACTCTCAGACTGGAAAG                         ACCATCAGGCCTTTGTGTGGACACTTGGATTTCTCATTTGCATCTGCATGG
genomic: TTGTTGGTGACAACCCAGATGGAATACTGGTGGACTCTCAGACTGGAAAGgtacctgttt ... tatcatgtagACCATCAGGCCTTTGTGTGGACACTTGGATTTCTCATTTGCATCTGCATGG
EST: gi|33401591|gb|CF207218.1|CF207218
EST:     CTCAGACTGG-AAG                         ATCATCAGGCCTTTGTGTGGACACTTGGATTTCTCATTTGCATCTGCATGG
genomic: CTCAGACTGGAAAGgtacctgttt ... tatcatgtagACCATCAGGCCTTTGTGTGGACACTTGGATTTCTCATTTGCATCTGCATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtagggggaaaaataagaaacggttccactcatttgaagttttttatcatgtagACCATCAGGCCTTTGTGTGGACACTTGGATTTCTCATTTGCATCTGCATGGCATCCTGATGGCAATATATTTGCCACTGGGAACCAGGACAAGACTTGCC
                                        ttttttatc  CT-rich tract
                                atttgaagttttttat  TA-rich tract