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配列の記載に用いる略号
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uracil in RNA</td> </tr> <tr> <td>m</td> <td>a or c</td> <td>amino</td> </tr> <tr> <td>r</td> <td>a or g</td> <td>purine</td> </tr> <tr> <td>w</td> <td>a or t</td> <td> </td> </tr> <tr> <td>s</td> <td>c or g</td> <td> </td> </tr> <tr> <td>y</td> <td>c or t</td> <td>pyrimidine</td> </tr> <tr> <td>k</td> <td>g or t</td> <td>keto</td> </tr> <tr> <td>v</td> <td>a or c or g</td> <td>not t</td> </tr> <tr> <td>h</td> <td>a or c or t</td> <td>not g</td> </tr> <tr> <td>d</td> <td>a or g or t</td> <td>not c</td> </tr> <tr> <td>b</td> <td>c or g or t</td> <td>not a</td> </tr> <tr> <td>n</td> <td>a or c or g or t</td> <td>any</td> </tr> </tbody> </table> <p>[参考文献]</p> <ul> <li>Cornish-Bowden, A. Nucl Acid Res 13, 3021-3030 (1985)</li> <li><a href="/ddbj/feature-table.html">Feature Table Definition</a>: <a href="/ddbj/feature-table.html#7.4.1">7.4.1 Nucleotide base codes (IUPAC)</a></li> </ul> <h3 id="nucleotide-2">Modified Base Abbreviations</h3> <p>修飾塩基は、以下の例のように modified base を用いて記載します。</p> <p>例</p> <pre><code> FEATURES Location/Qualifiers <a href="/ddbj/features.html#modified_base">modified_base</a> 15 <a href="/ddbj/qualifiers.html#mod_base">/mod_base</a>="m2g" </code> </pre> <p><br /></p> <table> <thead> <tr> <th>省略形</th> <th>修飾塩基</th> </tr> </thead> <tbody> <tr> <td>ac4c</td> <td>4-acetylcytidine</td> </tr> <tr> <td>chm5u</td> <td>5-(carboxyhydroxylmethyl)uridine</td> </tr> <tr> <td>cm</td> <td>2’-O-methylcytidine</td> </tr> <tr> <td>cmnm5s2u</td> <td>5-carboxymethylaminomethyl-2-thiouridine</td> </tr> <tr> <td>cmnm5u</td> <td>5-carboxymethylaminomethyluridine</td> </tr> <tr> <td>dhu</td> <td>dihydrouridine</td> </tr> <tr> <td>fm</td> <td>2’-O-methylpseudouridine</td> </tr> <tr> <td>gal q</td> <td>beta,D-galactosylqueuosine</td> </tr> <tr> <td>gm</td> <td>2’-O-methylguanosine</td> </tr> <tr> <td>i</td> <td>inosine</td> </tr> <tr> <td>i6a</td> <td>N6-isopentenyladenosine</td> </tr> <tr> <td>m1a</td> <td>1-methyladenosine</td> </tr> <tr> <td>m1f</td> <td>1-methylpseudouridine</td> </tr> <tr> <td>m1g</td> <td>1-methylguanosine</td> </tr> <tr> <td>m1i</td> <td>1-methylinosine</td> </tr> <tr> <td>m22g</td> <td>2,2-dimethylguanosine</td> </tr> <tr> <td>m2a</td> <td>2-methyladenosine</td> </tr> <tr> <td>m2g</td> <td>2-methylguanosine</td> </tr> <tr> <td>m3c</td> <td>3-methylcytidine</td> </tr> <tr> <td>m4c</td> <td>N4-methylcytosine</td> </tr> <tr> <td>m5c</td> <td>5-methylcytidine</td> </tr> <tr> <td>m6a</td> <td>N6-methyladenosine</td> </tr> <tr> <td>m7g</td> <td>7-methylguanosine</td> </tr> <tr> <td>mam5u</td> <td>5-methylaminomethyluridine</td> </tr> <tr> <td>mam5s2u</td> <td>5-methoxyaminomethyl-2-thiouridine</td> </tr> <tr> <td>man q</td> <td>beta,D-mannosylqueuosine</td> </tr> <tr> <td>mcm5s2u</td> <td>5-methoxycarbonylmethyl-2-thiouridine</td> </tr> <tr> <td>mcm5u</td> <td>5-methoxycarbonylmethyluridine</td> </tr> <tr> <td>mo5u</td> <td>5-methoxyuridine</td> </tr> <tr> <td>ms2i6a</td> <td>2-methylthio-N6-isopentenyladenosine</td> </tr> <tr> <td>ms2t6a</td> <td>N-((9-beta-D-ribofuranosyl-2-methyltiopurin-6-yl)carbamoyl)threonine</td> </tr> <tr> <td>mt6a</td> <td>N-((9-beta-D-ribofuranosylpurine-6-yl)N-methyl-carbamoyl)threonine</td> </tr> <tr> <td>mv</td> <td>uridine-5-oxyacetic acid methylester</td> </tr> <tr> <td>o5u</td> <td>uridine-5-oxyacetic acid (v)</td> </tr> <tr> <td>osyw</td> <td>wybutoxosine</td> </tr> <tr> <td>p</td> <td>pseudouridine</td> </tr> <tr> <td>q</td> <td>queuosine</td> </tr> <tr> <td>s2c</td> <td>2-thiocytidine</td> </tr> <tr> <td>s2t</td> <td>5-methyl-2-thiouridine</td> </tr> <tr> <td>s2u</td> <td>2-thiouridine</td> </tr> <tr> <td>s4u</td> <td>4-thiouridine</td> </tr> <tr> <td>m5u</td> <td>5-methyluridine</td> </tr> <tr> <td>t6a</td> <td>N-((9-beta-D-ribofuranosylpurine-6-yl)carbamoyl)threonine</td> </tr> <tr> <td>tm</td> <td>2’-O-methyl-5-methyluridine</td> </tr> <tr> <td>um</td> <td>2’-O-methyluridine</td> </tr> <tr> <td>yw</td> <td>wybutosine</td> </tr> <tr> <td>x</td> <td>3-(3-amino-3-carboxypropyl)uridine, (acp3)u</td> </tr> <tr> <td>OTHER</td> <td>Other (<a href="/ddbj/qualifiers.html#note">/note</a> qualifier に修飾塩基を記載します)</td> </tr> </tbody> </table> <p>[参考文献]</p> <ul> <li>Sprinzl, M. and Gauss, D.H. Nucl Acid Res 10, r1 (1982).(note that in Cornish_Bowden, A. Nucl Acid Res 13, 3021-3030 (1985)the IUPAC-IUB declined to recommend a set of abbreviations for modified nucleotides)</li> <li><a href="/ddbj/feature-table.html">Feature Table Definition</a>: <a href="/ddbj/feature-table.html#7.4.2">7.4.2 Modified base abbreviations</a></li> </ul> <h2 id="amino">アミノ酸</h2> <h3 id="amino-1">Amino Acid Codes</h3> <p>国際塩基配列データベースで使用するアミノ酸コードは以下の通りです。<br /> <a href="/ddbj/cds.html">CDS feature</a> の <a href="/ddbj/qualifiers.html#translation">/translation</a> には以下の一文字表記で表されます。 <br /> <a href="/ddbj/qualifiers.html#transl_except">/transl_except</a>, <a href="/ddbj/qualifiers.html#anticodon">/anticodon</a> に記載するアミノ酸は、以下の省略形を使用します。<br /> これ以外のアミノ酸を記載する場合には、<a href="#amino-2">Modified and unusual Amino Acids</a>を参照して下さい。</p> <table> <thead> <tr> <th>Abbreviation</th> <th>1 letter abbreviation</th> <th>Amino acid name</th> </tr> </thead> <tbody> <tr> <td>Ala</td> <td>A</td> <td>Alanine</td> </tr> <tr> <td>Arg</td> <td>R</td> <td>Arginine</td> </tr> <tr> <td>Asn</td> <td>N</td> <td>Asparagine</td> </tr> <tr> <td>Asp</td> <td>D</td> <td>Aspartic acid</td> </tr> <tr> <td>Cys</td> <td>C</td> <td>Cysteine</td> </tr> <tr> <td>Gln</td> <td>Q</td> <td>Glutamine</td> </tr> <tr> <td>Glu</td> <td>E</td> <td>Glutamic acid</td> </tr> <tr> <td>Gly</td> <td>G</td> <td>Glycine</td> </tr> <tr> <td>His</td> <td>H</td> <td>Histidine</td> </tr> <tr> <td>Ile</td> <td>I</td> <td>Isoleucine</td> </tr> <tr> <td>Leu</td> <td>L</td> <td>Leucine</td> </tr> <tr> <td>Lys</td> <td>K</td> <td>Lysine</td> </tr> <tr> <td>Met</td> <td>M</td> <td>Methionine</td> </tr> <tr> <td>Phe</td> <td>F</td> <td>Phenylalanine</td> </tr> <tr> <td>Pro</td> <td>P</td> <td>Proline</td> </tr> <tr> <td>Pyl</td> <td>O</td> <td>Pyrrolysine</td> </tr> <tr> <td>Ser</td> <td>S</td> <td>Serine</td> </tr> <tr> <td>Sec</td> <td>U</td> <td>Selenocysteine</td> </tr> <tr> <td>Thr</td> <td>T</td> <td>Threonine</td> </tr> <tr> <td>Trp</td> <td>W</td> <td>Tryptophan</td> </tr> <tr> <td>Tyr</td> <td>Y</td> <td>Tyrosine</td> </tr> <tr> <td>Val</td> <td>V</td> <td>Valine</td> </tr> <tr> <td>Asx</td> <td>B</td> <td>Aspartic acid or Asparagine</td> </tr> <tr> <td>Glx</td> <td>Z</td> <td>Glutamic acid or Glutamine</td> </tr> <tr> <td>Xaa</td> <td>X</td> <td>Any amino acid</td> </tr> <tr> <td>Xle</td> <td>J</td> <td>Leucine or Isoleucine</td> </tr> <tr> <td>TERM</td> <td> </td> <td>termination codon</td> </tr> </tbody> </table> <p>[参考文献]</p> <ul> <li>IUPAC-IUB Joint Commission on Biochemical Nomenclature.Nomenclature and Symbolism for Amino Acids and Peptides. Eur. J. Biochem. 138: 9-37 (1984).</li> <li><a href="/ddbj/feature-table.html">Feature Table Definition</a>: <a href="/ddbj/feature-table.html#7.4.3">7.4.3 Amino acid abbreviations</a></li> </ul> <h3 id="amino-2">Modified and Unusual Amino Acids</h3> <p><a href="#amino-1">Amino Acid Codes</a> にないアミノ酸を記載する場合には以下の省略形を使用します。<br /> <a href="/ddbj/cds.html">CDS feature</a> の <a href="/ddbj/qualifiers.html#translation">/translation</a> にはいずれも “X” で表されます。</p> <table> <thead> <tr> <th>省略形</th> <th>アミノ酸</th> </tr> </thead> <tbody> <tr> <td>Aad</td> <td>2-Aminoadipic acid</td> </tr> <tr> <td>bAad</td> <td>3-Aminoadipic acid</td> </tr> <tr> <td>bAla</td> <td>beta-Alanine, beta-Aminoproprionic acid</td> </tr> <tr> <td>Abu</td> <td>2-Aminobutyric acid</td> </tr> <tr> <td>4Abu</td> <td>4-Aminobutyric acid, piperidinic acid</td> </tr> <tr> <td>Acp</td> <td>6-Aminocaproic acid</td> </tr> <tr> <td>Ahe</td> <td>2-Aminoheptanoic acid</td> </tr> <tr> <td>Aib</td> <td>2-Aminoisobutyric acid</td> </tr> <tr> <td>bAib</td> <td>3-Aminoisobutyric acid</td> </tr> <tr> <td>Apm</td> <td>2-Aminopimelic acid</td> </tr> <tr> <td>Dbu</td> <td>2,4-Diaminobutyric acid</td> </tr> <tr> <td>Des</td> <td>Desmosine</td> </tr> <tr> <td>Dpm</td> <td>2,2’-Diaminopimelic acid</td> </tr> <tr> <td>Dpr</td> <td>2,3-Diaminoproprionic acid</td> </tr> <tr> <td>EtGly</td> <td>N-Ethylglycine</td> </tr> <tr> <td>EtAsn</td> <td>N-Ethylasparagine</td> </tr> <tr> <td>Hyl</td> <td>Hydroxylysine</td> </tr> <tr> <td>aHyl</td> <td>allo-Hydroxylysine</td> </tr> <tr> <td>3Hyp</td> <td>3-Hydroxyproline</td> </tr> <tr> <td>4Hyp</td> <td>4-Hydroxyproline</td> </tr> <tr> <td>Ide</td> <td>Isodesmosine</td> </tr> <tr> <td>aIle</td> <td>allo-Isoleucine</td> </tr> <tr> <td>MeGly</td> <td>N-Methylglycine, sarcosine</td> </tr> <tr> <td>MeIle</td> <td>N-Methylisoleucine</td> </tr> <tr> <td>MeLys</td> <td>6-N-Methyllysine</td> </tr> <tr> <td>MeVal</td> <td>N-Methylvaline</td> </tr> <tr> <td>Nva</td> <td>Norvaline</td> </tr> <tr> <td>Nle</td> <td>Norleucine</td> </tr> <tr> <td>Orn</td> <td>Ornithine</td> </tr> <tr> <td>OTHER</td> <td>Other (<a href="/ddbj/qualifiers.html#note">/note</a> qualifier にアミノ酸を記載します)</td> </tr> </tbody> </table> <p>[参考文献]</p> <ul> <li><a href="/ddbj/feature-table.html">Feature Table Definition</a>: <a href="/ddbj/feature-table.html#7.4.4">7.4.4 Modified and unusual Amino Acids</a></li> </ul> </main> <aside class="related-pages"> <h2 class="caption">Related pages</h2> <div class="navigation"> <nav> <ul> <li> <a href="/ddbj/geneticcode.html">The Genetic Codes</a> </li> <li> <a href="/ddbj/codontable.html">The Genetic Codes</a> </li> <li> <a href="/ddbj/flat-file.html">DDBJ 公開形式 (Flat file)</a> </li> <li> <a href="/ddbj/features.html">Feature key</a> </li> <li> <a href="/ddbj/qualifiers.html">Qualifier key</a> </li> <li> <a href="/ddbj/organism.html">Organism qualifier に記載する生物名</a> </li> <li> <a href="/ddbj/location.html">Location の記述法</a> </li> <li> <a href="/ddbj/cds.html">タンパク質コード配列; CDS feature について</a> </li> <li> <a href="/ddbj/geneticcode-e.html">The Genetic Codes</a> </li> <li> <a href="/ddbj/example.html">配列データ記載例</a> </li> </ul> </nav> </div> </aside> </section> </div> </section> </div> <footer></footer> <div id="back-top"></div> </body> </html>