note - FIZ Karlsruhe
note - FIZ Karlsruhe
note - FIZ Karlsruhe
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Introduction to similarity searching<br />
Nucleic acid sequence search example<br />
Search Question: Find sequences with similarity to Mus musculus neuregulin 4 (Nrg4)<br />
CDS sequence (NCBI: NM_032002):<br />
Page 26 | GENESEQ on STN (DGENE) Workshop Manual<br />
ATGCCAACAGATCACGAGCAGCCCTGTGGTCCCAGGCACAGGTCATTTTG<br />
CCTCAATGGGGGGATTTGTTATGTGATCCCTACTATCCCCAGCCCATTCT<br />
GTAGGTGCATTGAAAATTACACCGGAGCACGCTGCGAAGAGGTTTTTCTC<br />
CCAAGCTCCAGCATCCCAAGCGAAAGTAATCTGTCGGCAGCTTTCGTGGT<br />
GCTGGCGGTCCTCCTCACTCTTACCATCGCGGCGCTCTGCTTCCTGTGCA<br />
GGAAGGGCCACCTTCAGAGGGCCAGTTCAGTCCAGTGTGAGATCAGCCTG<br />
GTAGAGACAAACAATACCAGAACCCGTCACAGCCACAGAGAACACTGA<br />
Search Strategy<br />
To conduct a similarity search for sequences using BLAST…<br />
Step 1 Prepare the sequence query offline<br />
Step 2 Upload the sequence using STN Express<br />
Step 3 Conduct a BLAST search and keep all answers<br />
Step 4 Sort the answers by descending similarity score<br />
Step 5 Review using a free-of-charge format with alignment<br />
Step 6 Display selected answers in a bibliographic format