FSPLICE

FSPLICE - find splice sites in genomic DNA

Example

Paste nucleotide sequence here:
>NM_000449 chr 1 - 148089557 148094091 4535 agtaatggaataatttctaattttcggagaaggcaagtggtgagaaaaagaccaccgggg aaattcggaggctttgtttctgtttctctgcctttctgggtaaagagatgaggagtgccc tggggccttctggggaagggaaggccagtgtgagttacatctttatgcctgtccctctca attctagccctcatgccgggatggcagaagatgagcctgatgctaagagccccaagactg ggggaagggcccccccaggtggtgctgaggctggggaacctaccacccttcttcagaggc tccgaggtaccatttcgtaagtactcatcacatctccaagtcctgtccaagacctgagta tagatccctgcagcacttcactttggctgtagatgaactgcctctcagcaagggcatggg agcagagggagatttttggccatggtagcaattcttgagcacctgctgggcatttcagtc cttttccctccctagcagtcagataaagagacagggaaaatcttgtgtgtgacctccagc tttctcctcttccccacagcaaggccgtgcagaacaaagtagaggggatcctggtaagtg tgttggggaagagggcaagagagggatggaaatgctgagggaggaggatgtgaggatgat gggcatcaacaaaacattgatgtgggagaggtagggtcctctgccttgtcagaagatagt tggctttgcaaacttgctgccagtttgactttgtgcctctcacttgatctctgtgagcac ttgcatagaagcccagcagagatgaagtcagagctgatcccctctacttccctcctctcc atggtagcctatagggctcctcagagcacctagcatcaaataannnnnnnnnnnnnnnnn nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnttgtcnn nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnagctagactttggtgtgg ggatcagagggtcctatattgggtccttcttggccttattatttctcctgcctctgttct ctcctacctcagcaagatgtacagaaattttctgacaatgacaagctgtatctctacctt cagctcccctcaggacccaccactggagacaaaaggtaggtttgatagtagttttagatg gcagaggttctgattcttagagaaaggttcactgggaaggggtgaggtgaataggaatac tcgtaaatgctgtccttgatgaagaggaaaggtcctcgccctgacttggtttaccaggga aagttagattctgggtgaactaaatttggtccagcactactgaagtggtagtttgggaag aaccaggacaactgttagggtcttagtaatgcttgttccttttgtttctgtagctcagag ccaagtacactgagcaatgaggagtacatgtatgcctataggtggatccgcaaccacctg gaagagcacactgacacctgtctgccaaagcaaagtgtttatgatgcctatcggtgggtg gaggggtgggtggtgggatgagtggattggtgggcataggaccccctcacccatgaagag cttcctgccttgataaagcctgccttcttaaagggttcctcacacttgatccctagggac tcttcgagcctacccatggcctccttctctgagtatcttcccactctgctcccctctcac tcaggaagtactgtgagagtcttgcctgttgccgcccactcagcacagccaactttggca agatcatcagagagatcttccctgacatcaaagctcgaaggcttggtggccggggccagt ccaagtatccttgactagagaggttgggggtggaggacctgggaggaagacttaggatgt ggagagcaaggagtggaacagcttaacttgctcgaggggcttggagatcgccatgtgttg gctgctctttaacttgcatcagatattgctacagtggcataaggaggaagaccttggtgt ctatgccacccctgcctggacttgacctaaagggttctgagagtgtaagtaccaaatcac cttccaattccactcttctctcccaggtaaaagtcagaggtctttggggcatgttttgag ggctaacagcctcagtcattatgtacatagcttctaggtatgatgttcccttctgccaac cctgtagctgaggcagaggatgaagagaacttgtgggcttctgcaatgggataggtagag gctactcccatccccagtctggtctcagctttggtcaatagtctttgatctctgacaaga gaggaggcaagggttctttaatttggagtgtgattgggcatgtccttccccacttcagcc agaaatgggcccagaagtaaccccagcacctcgagatgaactggtggaggcagcgtgtgc cctgacctgtgactgggcagagcggatcctgaaacggtccttcagttccatcgttgaggt cgcccgcttcctgctacagcagcatctcatctctgcccgatctgcacatgcccatgtgct taaggccatggggctcgctggtgtgttgaccctctcttatgtctcagcaaccctgagcca ctttcagcttcagtggccctcccacacactagaatagagacaccttggatttgccccctc ttcctggagacccttctaagacatgctttagcaccccatttcctgtctctaccagtcagt caatcagaattgcctcactcccctattcctcagtttcctcctcaccttcactctattacc tttttggtacctctgcagaagaggacgaacatgcacctcgggaacggtcatctaaaccaa agaatggtttagagaacccagagggtggagcccacaagaagccagagagactggcccagg taaggaagtcagtggccctgactttgctgtcctgggctgggggcttagtatatccttctc caattgggtcccttgcttttccacctcctgtgcctctggcgtctatgtttcccccaatac tcattcttcacaccttactgtgttcctctctttactttttagcctcctaaggatctggaa gcccgaactggggccggtcctctcgcacgtggagagcggaagaagagtgtagttgagagc tcggccccaggagccaataacctgcaggttaatgccctagtggctcggctgcctctgctc cttccccgggcccctcgctcactaattccgccaatcccagtctctccacctattctggcc cccaggctttcttcaggtgccctgaaagtggctacactgcctctgtctagtagggccggg gcacccccagcagctgtgcccatcattaacatgatcttaccaactgttcctgctttgcct ggacctggacctgggcctgggcgagctccacctgggggactcactcagccccggggcaca gagaacagagaggtaggcataggtggtgaccaaggaccacatgacaagggtgtcaagagg acagctgaagtacctgtgagtgaggccagtgggcaggctccaccagctaaagcagcaaag caggatatagaggatacagcaagtgatgccaaaaggaaacgggggcgccctcgaaaaaag tcaggtggaagtggggaaaggaattctacccctctcaagtcagcagctgccatggaatct gcccagtcctcaaggttaccatgggagacatggggctcaggaggggaaggcaactcagct ggaggggcagagaggccagggccaatgggagaggctgaaaagggggcagtacttgcccag ggtcagggagatggtactgtttccaaaggaggaaggggccccggttcccagcataccaaa gaagcagaagataaaattcccttggtcccctcaaaagtgagtgtcatcaagggcagcaga agccaaaaggaggcttttcctttggcaaagggagaggtagacactgcaccacagggtaat aaagacttaaaggagcatgtgcttcaaagttccttatcccaggagcataaagacccaaaa gcaacacccccatgatacaggtctgtggggaagagtgtttatatccctacgttaactttg cctagtagaggcccttctttgcacttgcttctcatttggctattcttttcctaaggaagt ccattctcctctgtacagacagctgagtcacccagtctacttagtacctggttgctgcct ctgaccttttcagcttgataccctgggctttagtg

Alternatively, load a local file with sequence in Fasta format:

Local file name:

Select organism specific gene-finding parameters :

Total 506 genome-specific parameters are available for genefinders of FGENESH suite

Search in chain:

Direct
Reverse
Both

Search for GC donor site

Output splice site sequence
Output splice site sequence length

Splice site threshold

Return to page with other programs of group: Gene finding

Most gene finding parameters presented here were trained by Softberry for its own use and distribution, using proprietary and publicly available data. Some of the parameters were created for our academic customers, including Broad Institute/MIT, Washington University, University of Minnesota and The Institute for Genomic Research (TIGR).

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Last modification date: 12 Dec 2013

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FSPLICE

Example