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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtactgcacttcatttctggaaagaatacttattatttgacataagtcttaaatcacctgatttaccttgcaatgtcagGTTTTTTGTTACTCCATCAGATTCTGTTGCTATCATTGCTGCAAATGCAGTTGACGCAATACCCTATTTCTCTGCTGGTTTAAAGGGAGTTGCCAG

Basic information

species Vitis vinifera
transcript Vv01s0011g05370.t01
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0011g05370.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA05G34790.1 (Glycine max), 3'ss of exon 10
gtagtactgcacttcatttctggaaagaatacttattatttgacataagtcttaaatcacctgatttaccttgcaatgtcagGTTTTTTGTTACTCCATCAGATTCTGTTGCTATCATTGCTGCAAATGCAGTTGACGCAATACCCTATTTCTCTGCTGGTTTAAAGGGAGTTGCCAG
|||||  ||| ||| |||| |||  |   ||  |||| |   || |      |  |  | |||  |  ||      ||| ||||||||||| ||||| |||||||| || || || || ||||||||||| ||||| || ||||| || || ||||||||||||||||| ||||||||
gtagtgttgcccttaatttgtggtgaatttaaatattctccaactttttgtgtgtaatatctgtgtatcccctgtttgttagGTTTTTTGTCACTCCTTCAGATTCCGTGGCCATTATCGCTGCAAATGCCGTTGAAGCTATACCATACTTTTCTGCTGGTTTAAAGGGTGTTGCCAG

upper sequence: Vv01s0011g05370.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA08G04890.1 (Glycine max), 3'ss of exon 10
gtagtactgcacttcatttctggaaagaatacttattatttgacataagtcttaaatcacctgatttaccttgcaatgtcagGTTTTTTGTTACTCCATCAGATTCTGTTGCTATCATTGCTGCAAATGCAGTTGACGCAATACCCTATTTCTCTGCTGGTTTAAAGGGAGTTGCCAG
|||||  ||  ||| |||| ||   |   ||  |||| | | || |   | |  |||  |    | | || ||   ||| ||||||||||| ||||| |||||||| || || || || ||||||||||| ||||| || ||||| || || ||||||||||||||||| ||||||||
gtagtgttgtccttaatttgtgatgaatttaaatattctctaacttttttgtgtaatatctgtgtatcccctgtt-tgttagGTTTTTTGTCACTCCTTCAGATTCCGTGGCCATTATCGCTGCAAATGCTGTTGAAGCTATACCATACTTTTCTGCTGGTTTAAAGGGTGTTGCCAG

upper sequence: Vv01s0011g05370.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA03G05150.1 (Glycine max), 3'ss of exon 3
gtagtactgcacttcatttctggaaagaatacttattatttgacataagtcttaaatcacctgatttaccttgcaatgtcagGTTTTTTGTTACTCCATCAGATTCTGTTGCTATCATTGCTGCAAATGCAGTTGACGCAATACCCTATTTCTCTGCTGGTTTAAAGGGAGTTGCCAG
|||||  ||  ||| |||| ||   |   ||  |||| | | || |   | |  |||  |    | | |||||   ||| ||||||||||| ||| | | |||||| || || || || ||||||||||| ||||| || ||||| || || ||||||||||||||||| ||||| ||
gtagtgttgtccttaatttgtgatgaatttaaatattctctaacttttttgtgtaatatctgtgtatcccttgtt-tgttagGTTTTTTGTCACTGCTTTAGATTCCGTGGCCATTATCGCTGCAAATGCTGTTGAAGCTATACCATACTTTTCTGCTGGTTTAAAGGGTGTTGCTAG

upper sequence: Vv01s0011g05370.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT1G70730.1 (Arabidopsis thaliana), 3'ss of exon 10
gtagtactg--cacttcatttctggaaagaatacttattatttgacataagtcttaaatcacctgatttaccttgcaatgtc----------agGTTTTTTGTTACTCCATCAGATTCTGTTGCTATCATTGCTGCAAATGCAGTTGACGCAATACCCTATTTCTCTGCTGGTTTAAAGGGAGTTGCCAG
|||| |  |   | |||  || |       ||       || ||       | |   |    |    ||| |    ||| ||          |||||||| || ||||| || ||||| |||||||| |||||||||||||| ||||  || ||||| || |||    |||||||||| || ||||| ||
gtagcagagactaattctcttttaagtgagatcacagagatgtggagcggatataccactctccccgttaaccaaaaatatctcttctccgcagGTTTTTCGTAACTCCTTCGGATTCAGTTGCTATAATTGCTGCAAATGCTGTTGGGGCCATACCATACTTCAGCTCTGGTTTAAAAGGTGTTGCTAG

upper sequence: Vv01s0011g05370.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: PP1S4_12V6.2 (Physcomitrella patens), 3'ss of exon 11
-------------------gtagtactgcacttcatttctggaaagaatacttattatttgacataagtcttaaatcacctgatttaccttgcaatgtcagGTTTTTTGTTACTCCATCAGATTCTGTTGCTATCATTGCTGCAAATGCAGTTGACGCAATACCCTATTTCTCTGCTGGTTTAAAGGGAGTTGCCAG
                   ||    | |   ||  ||  | | ||   |  || | |  ||      |   ||  |      || |  ||   | || |||||| ||||| ||||||||||| ||||| |||||||||||||| ||||| ||||  || || |||||||||  || |||| | || |||||||| ||
gatgctctccaatgttcttgtgtcgccgtttttttttctttgtaatgcttgttctcacctggtgactgaggtatgtgttgcaatctggctctgagtg-cagGTTCTTTGTGACTCCATCAGACTCTGTAGCTATCATTGCTGCTAATGCTGTTGGGGCTATCCCCTATTTCAGTGGTGGTCTGAAAGGAGTTGCAAG

upper sequence: Vv01s0011g05370.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: EFJ05270 (Selaginella moellendorffii), 3'ss of exon 9
gtagtactgcacttcatttctggaaagaatacttattatttgacataagtcttaaatcacctgatttaccttgcaatgtcagGTTTTTTGTTACTCCATCAGATTCTGTTGCTATCATTGCTGCAAATGCAGTTGACGCAATACCCTATTTCTCTGCTGGTTTAAAGGGAGTTGCCAG
   ||| |     || ||  ||         |||    |  |   ||  | ||   | | || |   |     ||||| ||||||||| || |||||||||||||| || ||||| || ||||||||||| || ||  | ||||| |||||   | | ||| | || || ||||| ||
---gtagtatttatctttcttg-------cgcttccagtccgctttagctttt--ctaagctaacggaat---caatg-cagGTTTTTCGTAACTCCATCAGATTCAGTGGCTATTATCGCTGCAAATGCCGTGGATTCGATACCGTATTTTCGTTCCGGTCTGAAAGGTGTTGCGAG

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|30133454|gb|CB918793.1|CB918793
EST:     GCCGCTTCTGATGGTGATGCAGATCGTAACATGATCCTTGGCAAAAG                         GTTTTTTGTTACTCCATCAGATTCTGTTGCTATCATTGCTGCAAATGCAGT
genomic: GCCGCTTCTGATGGTGATGCAGATCGTAACATGATCCTTGGCAAAAGgtagtactgc ... gcaatgtcagGTTTTTTGTTACTCCATCAGATTCTGTTGCTATCATTGCTGCAAATGCAGT
EST: gi|30132705|gb|CB918044.1|CB918044
EST:     GGTGCCGCTTCTGATGGTGATGCAGATCGTAACATGATCCTTGGCAAAAG                         GTTTTTTGTTACTCCATCAGATTCTGTTGCTATCATTGCTGCAAATGCAGT
genomic: GGTGCCGCTTCTGATGGTGATGCAGATCGTAACATGATCCTTGGCAAAAGgtagtactgc ... gcaatgtcagGTTTTTTGTTACTCCATCAGATTCTGTTGCTATCATTGCTGCAAATGCAGT
EST: gi|161709381|gb|FC059250.1|FC059250
EST:     GGTGCCGCTTCTGATGGTGATGCAGATCGTAACATGATCCTTGGCAAAAG                         GTTTTTTGTTACTCCATCAGATTCTGTTGCTATCATTGCTGCAAATGCAGT
genomic: GGTGCCGCTTCTGATGGTGATGCAGATCGTAACATGATCCTTGGCAAAAGgtagtactgc ... gcaatgtcagGTTTTTTGTTACTCCATCAGATTCTGTTGCTATCATTGCTGCAAATGCAGT
EST: gi|30305224|gb|CB982018.1|CB982018
EST:     GGTGCCGCTTCTGATGGTGATGCAGATCGTAACATGATCCTTGGCAAAAG                         GTTTTTTGTTACTCCATCAGATTCTGTTGCTATCATTGCTGCAAATGCAGT
genomic: GGTGCCGCTTCTGATGGTGATGCAGATCGTAACATGATCCTTGGCAAAAGgtagtactgc ... gcaatgtcagGTTTTTTGTTACTCCATCAGATTCTGTTGCTATCATTGCTGCAAATGCAGT
EST: gi|32270099|gb|CD719258.1|CD719258
EST:     GGTGCCGCTTCTGATGGTGATGCAGATCGTAACATGATCCTTGGCAAAAG                         GTTTTTTGTTACTCCATCAGATTCTGTTGCTATCATTGCTGCAAATGCAGT
genomic: GGTGCCGCTTCTGATGGTGATGCAGATCGTAACATGATCCTTGGCAAAAGgtagtactgc ... gcaatgtcagGTTTTTTGTTACTCCATCAGATTCTGTTGCTATCATTGCTGCAAATGCAGT
EST: gi|30137874|gb|CB923212.1|CB923212
EST:     GCCGCTTCTGATGGTGATGCAGATCGTAACATGATCCTTGGCAAAAG                         GTTTTTTGTTACTCCATCAGATTCTGTTGCTATCATTGCTGCAAATGCAGT
genomic: GCCGCTTCTGATGGTGATGCAGATCGTAACATGATCCTTGGCAAAAGgtagtactgc ... gcaatgtcagGTTTTTTGTTACTCCATCAGATTCTGTTGCTATCATTGCTGCAAATGCAGT
EST: gi|37183515|gb|CF602869.1|CF602869
EST:     GGTGCCGCTTCTGATGGTGATGCAGATCGTAACATGATCCTTGGCAAAAG                         GTTTTTTGTTACTCCATCAGATTCTGTTGCTATCATTGCTGCAAATGCAGT
genomic: GGTGCCGCTTCTGATGGTGATGCAGATCGTAACATGATCCTTGGCAAAAGgtagtactgc ... gcaatgtcagGTTTTTTGTTACTCCATCAGATTCTGTTGCTATCATTGCTGCAAATGCAGT
EST: gi|351015349|gb|FQ445633.1|FQ445633
EST:     GTGCCGCTTCTGATGGTGATGCAGATCGTAACATGATCCCTTGGCAAAAG                         GTTTTTTGTTACTCC
genomic: GTGCCGCTTCTGATGGTGATGCAGATCGTAACATGATCC-TTGGCAAAAGgtagtactgc ... gcaatgtcagGTTTTTTGTTACTCC
EST: gi|30125147|gb|CB910486.1|CB910486
EST:     GGTGCCGCTTCTGATGGTGATGCAGATCGTAACATGATCCTTGGCAAAAG                         GTTTTTTGTTACTCCATCAGATTCTGTTGCTATCATTGCTGCAAATGCAGT
genomic: GGTGCCGCTTCTGATGGTGATGCAGATCGTAACATGATCCTTGGCAAAAGgtagtactgc ... gcaatgtcagGTTTTTTGTTACTCCATCAGATTCTGTTGCTATCATTGCTGCAAATGCAGT
EST: gi|30136409|gb|CB921747.1|CB921747
EST:     GGTGCCGCTTCTGATGGTGATGCAGATCGTAACATGATCCTTGGCAAAAG                         GTTTTTTGTTACTCCATCAGATTCTGTTGCTATCATTGCTGCAAATGCAGT
genomic: GGTGCCGCTTCTGATGGTGATGCAGATCGTAACATGATCCTTGGCAAAAGgtagtactgc ... gcaatgtcagGTTTTTTGTTACTCCATCAGATTCTGTTGCTATCATTGCTGCAAATGCAGT
EST: gi|30305289|gb|CB982083.1|CB982083
EST:     GGTGCCGCTTCTGATGGTGATGCAGATCGTAACATGATCCTTGGCAAAAG                         GTTTTTTGTTACTCCATCAGATTCTGTTGCTATCATTGCTGCAAATGCAGT
genomic: GGTGCCGCTTCTGATGGTGATGCAGATCGTAACATGATCCTTGGCAAAAGgtagtactgc ... gcaatgtcagGTTTTTTGTTACTCCATCAGATTCTGTTGCTATCATTGCTGCAAATGCAGT
EST: gi|349818554|gb|FQ403189.1|FQ403189
EST:     GTGCCGCTTCTGATGGTGATGCAGATCGTAACATGATCCTTGGCAAAAAG                         GTTTTT-GTTACT
genomic: GTGCCGCTTCTGATGGTGATGCAGATCGTAACATGATCCTTGGCAAAA-Ggtagtactgc ... gcaatgtcagGTTTTTTGTTACT
EST: gi|349827300|gb|FQ421573.1|FQ421573
EST:     GGTGCCGCTTCTGATGGTGATGCAGATCGTAACATGATCCTTGGCAAAAG                         GTTTTTTGTTACTCCATCAGATTCTGTTGCTATCATTGCTGCAAATGCAGT
genomic: GGTGCCGCTTCTGATGGTGATGCAGATCGTAACATGATCCTTGGCAAAAGgtagtactgc ... gcaatgtcagGTTTTTTGTTACTCCATCAGATTCTGTTGCTATCATTGCTGCAAATGCAGT
EST: gi|349810186|gb|FQ401632.1|FQ401632
EST:     GGTGCCGCTTCTGATGGTGATGCAGATCGTAACATGATCCTTGGCAAAAA                         GTTTTTTGTTACTCCATC
genomic: GGTGCCGCTTCTGATGGTGATGCAGATCGTAACATGATCCTTGGCAAAAGgtagtactgc ... gcaatgtcagGTTTTTTGTTACTCCATC
EST: gi|161715091|gb|FC063627.1|FC063627
EST:     GGTGCCGCTTCTGATGGTGATGCAGATCGTAACATGATCCTTGGCAAAAG                         GTTTTTTGTTACTCCATCAGATTCTGTTGCTATCATTGCTGCAAATGCAGT
genomic: GGTGCCGCTTCTGATGGTGATGCAGATCGTAACATGATCCTTGGCAAAAGgtagtactgc ... gcaatgtcagGTTTTTTGTTACTCCATCAGATTCTGTTGCTATCATTGCTGCAAATGCAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatacttattatttgacataagtcttaaatcacctgatttaccttgcaatgtcagGTTTTTTGTTACTCCATCAGATTCTGTTGCTATCATTGCTGCAAATGCAGTTGACGCAATACCCTATTTCTCTGCTGGTTTAAAGGGAGTTGCCAG
                               acctgat  putative branch site (score: 4)
     ttattatttgacataa  TA-rich tract