"use strict";(globalThis.webpackChunk_jbrowse_web=globalThis.webpackChunk_jbrowse_web||[]).push([[8624],{38624:(e,n,t)=>{t.r(n),t.d(n,{default:()=>d});var c=t(67758),s=t(67112),o=t(72851),i=t(61282),l=t(76218),r=t(30698),h=t(69092),a=t(69500);function d(e){const n=(0,c.c)(13),{handleClose:t}=e;let d,u,p,g,m,x,j,f,w;return n[0]!==t?(d=()=>{t()},n[0]=t,n[1]=d):d=n[1],n[2]===Symbol.for("react.memo_cache_sentinel")?(u=(0,a.jsx)(i.A,{children:'The "Feature sequence" panel shows the underlying genomic sequence for a given feature, fetched from the reference genome.'}),p=(0,a.jsx)(i.A,{children:"For gene features, this panel does special calculations to e.g. stitch together the coding sequence, the options are:"}),g=(0,a.jsxs)("ul",{children:[(0,a.jsx)("li",{children:"CDS - shows the stitched together CDS sequences"}),(0,a.jsx)("li",{children:'Protein - the translated coding sequence, with the "standard" genetic code'}),(0,a.jsx)("li",{children:"cDNA - shows the 'copy DNA' of transcript, formed from exon sequences"}),(0,a.jsx)("li",{children:"Genomic w/ introns +/- Nbp up+down stream - the sequence underlying the entire gene including including introns, with UTR and CDS highlighted"})]}),m=(0,a.jsx)(i.A,{children:"For other feature types, the options are:"}),x=(0,a.jsx)("ul",{children:(0,a.jsx)("li",{children:"Genomic +/- Nbp up+down stream - the reference genome sequence underlying the feature, with the up and downstream sequence"})}),n[2]=u,n[3]=p,n[4]=g,n[5]=m,n[6]=x):(u=n[2],p=n[3],g=n[4],m=n[5],x=n[6]),n[7]===Symbol.for("react.memo_cache_sentinel")?(j=(0,a.jsxs)(l.A,{children:[u,p,g,m,x,(0,a.jsxs)(i.A,{children:['Note 1: you can use the "gear icon" ',(0,a.jsx)(o.A,{})," to edit the number of bp displayed up/downstream and in the intron region"]}),(0,a.jsx)(i.A,{children:"Note 2: The 'Copy HTML' function retains the colors from the sequence panel but cannot be pasted into some programs like notepad that only expect plain text."})]}),n[7]=j):j=n[7],n[8]!==t?(f=(0,a.jsx)(r.A,{children:(0,a.jsx)(h.A,{onClick:()=>{t()},autoFocus:!0,variant:"contained",children:"Close"})}),n[8]=t,n[9]=f):f=n[9],n[10]!==d||n[11]!==f?(w=(0,a.jsxs)(s.Dialog,{maxWidth:"xl",open:!0,onClose:d,title:"Feature sequence panel help",children:[j,f]}),n[10]=d,n[11]=f,n[12]=w):w=n[12],w}},72851:(e,n,t)=>{t.d(n,{A:()=>o});var c=t(29772),s=t(69500);const o=(0,c.A)((0,s.jsx)("path",{d:"M19.14 12.94c.04-.3.06-.61.06-.94 0-.32-.02-.64-.07-.94l2.03-1.58c.18-.14.23-.41.12-.61l-1.92-3.32c-.12-.22-.37-.29-.59-.22l-2.39.96c-.5-.38-1.03-.7-1.62-.94l-.36-2.54c-.04-.24-.24-.41-.48-.41h-3.84c-.24 0-.43.17-.47.41l-.36 2.54c-.59.24-1.13.57-1.62.94l-2.39-.96c-.22-.08-.47 0-.59.22L2.74 8.87c-.12.21-.08.47.12.61l2.03 1.58c-.05.3-.09.63-.09.94s.02.64.07.94l-2.03 1.58c-.18.14-.23.41-.12.61l1.92 3.32c.12.22.37.29.59.22l2.39-.96c.5.38 1.03.7 1.62.94l.36 2.54c.05.24.24.41.48.41h3.84c.24 0 .44-.17.47-.41l.36-2.54c.59-.24 1.13-.56 1.62-.94l2.39.96c.22.08.47 0 .59-.22l1.92-3.32c.12-.22.07-.47-.12-.61zM12 15.6c-1.98 0-3.6-1.62-3.6-3.6s1.62-3.6 3.6-3.6 3.6 1.62 3.6 3.6-1.62 3.6-3.6 3.6"}),"Settings")}}]);
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