@jbrowse/core 2.1.3 → 2.1.5

package/BaseFeatureWidget/BaseFeatureDetail.d.ts

@@ -1,7 +1,7 @@
 import React from 'react';
 import { IAnyStateTreeNode } from 'mobx-state-tree';
 import { BaseCardProps, BaseProps } from './types';
-import { SimpleFeatureSerialized } from '../util/simpleFeature';
+import { SimpleFeatureSerializedNoId } from '../util/simpleFeature';
 export declare const useStyles: (params: void, styleOverrides?: {
     props: {
         classes?: Record<string, string> | undefined;
@@ -54,7 +54,7 @@ export interface BaseInputProps extends BaseCardProps {
 }
 export declare const FeatureDetails: (props: {
     model: IAnyStateTreeNode;
-    feature: SimpleFeatureSerialized;
+    feature: SimpleFeatureSerializedNoId;
     depth?: number | undefined;
     omit?: string[] | undefined;
     formatter?: ((val: unknown, key: string) => React.ReactNode) | undefined;

package/BaseFeatureWidget/BaseFeatureDetail.js

@@ -325,7 +325,7 @@ const FeatureDetails = (props) => {
     const { omit = [], model, feature, depth = 0 } = props;
     const { name = '', id = '', type = '', subfeatures } = feature;
     const session = (0, util_1.getSession)(model);
-    const defaultSeqTypes = ['mRNA', 'transcript'];
+    const defaultSeqTypes = ['mRNA', 'transcript', 'gene'];
     const sequenceTypes = (0, configuration_1.getConf)(session, ['featureDetails', 'sequenceTypes']) || defaultSeqTypes;
     return (react_1.default.createElement(BaseCard, { title: generateTitle(name, id, type) },
         react_1.default.createElement(material_1.Typography, null, "Core details"),
@@ -335,7 +335,7 @@ const FeatureDetails = (props) => {
         react_1.default.createElement(Attributes, { attributes: feature, ...props, omit: [...omit, ...coreDetails] }),
         sequenceTypes.includes(feature.type) ? (react_1.default.createElement(react_error_boundary_1.ErrorBoundary, { FallbackComponent: ({ error }) => (react_1.default.createElement(material_1.Typography, { color: "error" }, `${error}`)) },
             react_1.default.createElement(SequenceFeatureDetails_1.default, { ...props }))) : null,
-        (subfeatures === null || subfeatures === void 0 ? void 0 : subfeatures.length) ? (react_1.default.createElement(BaseCard, { title: "Subfeatures", defaultExpanded: !sequenceTypes.includes(feature.type) }, subfeatures.map((sub) => (react_1.default.createElement(exports.FeatureDetails, { key: JSON.stringify(sub), feature: sub, model: model, depth: depth + 1 }))))) : null));
+        (subfeatures === null || subfeatures === void 0 ? void 0 : subfeatures.length) ? (react_1.default.createElement(BaseCard, { title: "Subfeatures", defaultExpanded: !sequenceTypes.includes(feature.type) }, subfeatures.map(sub => (react_1.default.createElement(exports.FeatureDetails, { key: JSON.stringify(sub), feature: sub, model: model, depth: depth + 1 }))))) : null));
 };
 exports.FeatureDetails = FeatureDetails;
 const BaseFeatureDetails = (0, mobx_react_1.observer)((props) => {

package/BaseFeatureWidget/SequenceFeatureDetails.d.ts

@@ -1,9 +1,12 @@
 import React from 'react';
 import { BaseProps } from './types';
 import { ParentFeat, SeqState } from './util';
-export declare const SequencePanel: React.ForwardRefExoticComponent<{
+interface SequencePanelProps {
     sequence: SeqState;
     feature: ParentFeat;
     mode: string;
-} & React.RefAttributes<HTMLDivElement>>;
-export default function SequenceFeatureDetails({ model, feature }: BaseProps): JSX.Element;
+    intronBp?: number;
+}
+export declare const SequencePanel: React.ForwardRefExoticComponent<SequencePanelProps & React.RefAttributes<HTMLDivElement>>;
+export default function SequenceFeatureDetails({ model, feature }: BaseProps): JSX.Element | null;
+export {};

package/BaseFeatureWidget/SequenceFeatureDetails.js

@@ -32,13 +32,23 @@ const material_1 = require("@mui/material");
 const mui_1 = require("tss-react/mui");
 const react_intersection_observer_1 = require("react-intersection-observer");
 const copy_to_clipboard_1 = __importDefault(require("copy-to-clipboard"));
+// locals
+const SequenceFeatureSettingsDialog_1 = __importDefault(require("./SequenceFeatureSettingsDialog"));
 const util_1 = require("../util");
 const configuration_1 = require("../configuration");
 const util_2 = require("./util");
+// icons
+const Settings_1 = __importDefault(require("@mui/icons-material/Settings"));
 const useStyles = (0, mui_1.makeStyles)()(theme => ({
     button: {
         margin: theme.spacing(1),
     },
+    formControl: {
+        margin: 0,
+    },
+    container: {
+        margin: theme.spacing(1),
+    },
 }));
 // note that these are currently put into the style section instead of being
 // defined in classes to aid copy and paste to an external document e.g. word
@@ -59,7 +69,7 @@ function GeneProtein({ cds, sequence, codonTable, }) {
     }
     return react_1.default.createElement("span", { style: { background: proteinColor } }, protein);
 }
-function GenecDNA({ utr, cds, exons, sequence, upstream, downstream, includeIntrons, collapseIntron, }) {
+function GenecDNA({ utr, cds, exons, sequence, upstream, downstream, includeIntrons, collapseIntron, intronBp, }) {
     const chunks = cds.length
         ? [...cds, ...utr].sort((a, b) => a.start - b.start)
         : exons;
@@ -74,15 +84,16 @@ function GenecDNA({ utr, cds, exons, sequence, upstream, downstream, includeIntr
                 react_1.default.createElement("span", { style: {
                         background: chunk.type === 'CDS' ? cdsColor : utrColor,
                     } }, sequence.slice(chunk.start, chunk.end)),
-                includeIntrons && index < chunks.length - 1 ? (react_1.default.createElement("span", { style: { background: intronColor } }, collapseIntron && intron.length > 20
-                    ? `${intron.slice(0, 10)}...${intron.slice(-10)}`
+                includeIntrons && index < chunks.length - 1 ? (react_1.default.createElement("span", { style: { background: intronColor } }, collapseIntron && intron.length > intronBp * 2
+                    ? `${intron.slice(0, intronBp)}...${intron.slice(-intronBp)}`
                     : intron)) : null));
         }),
         downstream ? (react_1.default.createElement("span", { style: { background: updownstreamColor } }, downstream)) : null));
 }
-exports.SequencePanel = react_1.default.forwardRef(({ feature, mode, sequence: { seq: sequence, upstream = '', downstream = '' }, }, ref) => {
+exports.SequencePanel = react_1.default.forwardRef((props, ref) => {
+    const { feature, mode, intronBp = 10 } = props;
+    let { sequence: { seq, upstream = '', downstream = '' }, } = props;
     const { subfeatures } = feature;
-    const codonTable = (0, util_1.generateCodonTable)(util_1.defaultCodonTable);
     if (!subfeatures) {
         return null;
     }
@@ -112,15 +123,16 @@ exports.SequencePanel = react_1.default.forwardRef(({ feature, mode, sequence: {
         // doing this in a single assignment is needed because downstream and
         // upstream are swapped so this avoids a temp variable
         ;
-        [sequence, upstream, downstream] = [
-            (0, util_1.revcom)(sequence),
+        [seq, upstream, downstream] = [
+            (0, util_1.revcom)(seq),
             (0, util_1.revcom)(downstream),
             (0, util_1.revcom)(upstream),
         ];
-        cds = (0, util_2.revlist)(cds, sequence.length);
-        exons = (0, util_2.revlist)(exons, sequence.length);
-        utr = (0, util_2.revlist)(utr, sequence.length);
+        cds = (0, util_2.revlist)(cds, seq.length);
+        exons = (0, util_2.revlist)(exons, seq.length);
+        utr = (0, util_2.revlist)(utr, seq.length);
     }
+    const codonTable = (0, util_1.generateCodonTable)(util_1.defaultCodonTable);
     return (react_1.default.createElement("div", { ref: ref, "data-testid": "sequence_panel" },
         react_1.default.createElement("div", { style: {
                 fontFamily: 'monospace',
@@ -129,7 +141,7 @@ exports.SequencePanel = react_1.default.forwardRef(({ feature, mode, sequence: {
                 maxWidth: 600,
             } },
             `>${feature.name || feature.id || 'unknown'}-${mode}\n`,
-            mode === 'cds' ? (react_1.default.createElement(GeneCDS, { cds: cds, sequence: sequence })) : mode === 'cdna' ? (react_1.default.createElement(GenecDNA, { exons: exons, cds: cds, utr: utr, sequence: sequence })) : mode === 'protein' ? (react_1.default.createElement(GeneProtein, { cds: cds, codonTable: codonTable, sequence: sequence })) : mode === 'gene' ? (react_1.default.createElement(GenecDNA, { exons: exons, cds: cds, utr: utr, sequence: sequence, includeIntrons: true })) : mode === 'gene_collapsed_intron' ? (react_1.default.createElement(GenecDNA, { exons: exons, cds: cds, sequence: sequence, utr: utr, includeIntrons: true, collapseIntron: true })) : mode === 'gene_updownstream' ? (react_1.default.createElement(GenecDNA, { exons: exons, cds: cds, sequence: sequence, utr: utr, upstream: upstream, downstream: downstream, includeIntrons: true })) : mode === 'gene_updownstream_collapsed_intron' ? (react_1.default.createElement(GenecDNA, { exons: exons, cds: cds, sequence: sequence, utr: utr, upstream: upstream, downstream: downstream, includeIntrons: true, collapseIntron: true })) : (react_1.default.createElement("div", null, "Unknown type")))));
+            mode === 'cds' ? (react_1.default.createElement(GeneCDS, { cds: cds, sequence: seq })) : mode === 'cdna' ? (react_1.default.createElement(GenecDNA, { exons: exons, cds: cds, utr: utr, sequence: seq, intronBp: intronBp })) : mode === 'protein' ? (react_1.default.createElement(GeneProtein, { cds: cds, codonTable: codonTable, sequence: seq })) : mode === 'gene' ? (react_1.default.createElement(GenecDNA, { exons: exons, cds: cds, utr: utr, sequence: seq, includeIntrons: true, intronBp: intronBp })) : mode === 'gene_collapsed_intron' ? (react_1.default.createElement(GenecDNA, { exons: exons, cds: cds, sequence: seq, utr: utr, includeIntrons: true, collapseIntron: true, intronBp: intronBp })) : mode === 'gene_updownstream' ? (react_1.default.createElement(GenecDNA, { exons: exons, cds: cds, sequence: seq, utr: utr, upstream: upstream, downstream: downstream, includeIntrons: true, intronBp: intronBp })) : mode === 'gene_updownstream_collapsed_intron' ? (react_1.default.createElement(GenecDNA, { exons: exons, cds: cds, sequence: seq, utr: utr, upstream: upstream, downstream: downstream, includeIntrons: true, collapseIntron: true, intronBp: intronBp })) : (react_1.default.createElement("div", null, "Unknown type")))));
 });
 // display the stitched-together sequence of a gene's CDS, cDNA, or protein
 // sequence. this is a best effort and weird genomic phenomena could lead these
@@ -140,12 +152,15 @@ function SequenceFeatureDetails({ model, feature }) {
     const parentFeature = feature;
     const hasCDS = (_a = parentFeature.subfeatures) === null || _a === void 0 ? void 0 : _a.find(sub => sub.type === 'CDS');
     const seqPanelRef = (0, react_1.useRef)(null);
+    const [settingsDlgOpen, setSettingsDlgOpen] = (0, react_1.useState)(false);
     const { ref, inView } = (0, react_intersection_observer_1.useInView)();
     const [sequence, setSequence] = (0, react_1.useState)();
     const [error, setError] = (0, react_1.useState)();
     const [mode, setMode] = (0, react_1.useState)(hasCDS ? 'cds' : 'cdna');
     const [copied, setCopied] = (0, react_1.useState)(false);
     const [copiedHtml, setCopiedHtml] = (0, react_1.useState)(false);
+    const [intronBp, setIntronBp] = (0, util_1.useLocalStorage)('intronBp', 10);
+    const [upDownBp, setUpDownBp] = (0, util_1.useLocalStorage)('upDownBp', 500);
     (0, react_1.useEffect)(() => {
         var _a;
         let finished = false;
@@ -182,8 +197,8 @@ function SequenceFeatureDetails({ model, feature }) {
             try {
                 const { start, end, refName } = feature;
                 const seq = await fetchSeq(start, end, refName);
-                const up = await fetchSeq(Math.max(0, start - 500), start, refName);
-                const down = await fetchSeq(end, end + 500, refName);
+                const up = await fetchSeq(Math.max(0, start - upDownBp), start, refName);
+                const down = await fetchSeq(end, end + upDownBp, refName);
                 if (!finished) {
                     setSequence({ seq, upstream: up, downstream: down });
                 }
@@ -195,35 +210,60 @@ function SequenceFeatureDetails({ model, feature }) {
         return () => {
             finished = true;
         };
-    }, [feature, inView, model]);
+    }, [feature, inView, model, upDownBp]);
     const loading = !sequence;
-    return (react_1.default.createElement("div", { ref: ref },
-        react_1.default.createElement(material_1.FormControl, null,
-            react_1.default.createElement(material_1.Select, { value: mode, onChange: event => setMode(event.target.value) },
+    return !model ? null : (react_1.default.createElement("div", { ref: ref, className: classes.container },
+        react_1.default.createElement(material_1.FormControl, { className: classes.formControl },
+            react_1.default.createElement(material_1.Select, { style: { margin: 0 }, value: mode, onChange: event => setMode(event.target.value) },
                 hasCDS ? react_1.default.createElement(material_1.MenuItem, { value: "cds" }, "CDS") : null,
                 hasCDS ? react_1.default.createElement(material_1.MenuItem, { value: "protein" }, "Protein") : null,
                 react_1.default.createElement(material_1.MenuItem, { value: "gene" }, "Gene w/ introns"),
-                react_1.default.createElement(material_1.MenuItem, { value: "gene_collapsed_intron" }, "Gene w/ 10bp of intron"),
-                react_1.default.createElement(material_1.MenuItem, { value: "gene_updownstream" }, "Gene w/ 500bp up+down stream"),
-                react_1.default.createElement(material_1.MenuItem, { value: "gene_updownstream_collapsed_intron" }, "Gene w/ 500bp up+down stream w/ 10bp intron"),
+                react_1.default.createElement(material_1.MenuItem, { value: "gene_collapsed_intron" },
+                    "Gene w/ ",
+                    intronBp,
+                    "bp of intron"),
+                react_1.default.createElement(material_1.MenuItem, { value: "gene_updownstream" },
+                    "Gene w/ ",
+                    upDownBp,
+                    "bp up+down stream"),
+                react_1.default.createElement(material_1.MenuItem, { value: "gene_updownstream_collapsed_intron" },
+                    "Gene w/ ",
+                    upDownBp,
+                    "bp up+down stream w/ ",
+                    intronBp,
+                    "bp intron"),
                 react_1.default.createElement(material_1.MenuItem, { value: "cdna" }, "cDNA"))),
-        react_1.default.createElement(material_1.Button, { className: classes.button, type: "button", variant: "contained", onClick: () => {
-                const ref = seqPanelRef.current;
-                if (ref) {
-                    (0, copy_to_clipboard_1.default)(ref.textContent || '', { format: 'text/plain' });
-                    setCopied(true);
-                    setTimeout(() => setCopied(false), 1000);
-                }
-            } }, copied ? 'Copied to clipboard!' : 'Copy as plaintext'),
-        react_1.default.createElement(material_1.Tooltip, { title: "Note that 'Copy as HTML' can retain the colors but cannot be pasted into some programs like notepad that only expect plain text" },
+        react_1.default.createElement(material_1.FormControl, { className: classes.formControl },
             react_1.default.createElement(material_1.Button, { className: classes.button, type: "button", variant: "contained", onClick: () => {
                     const ref = seqPanelRef.current;
                     if (ref) {
-                        (0, copy_to_clipboard_1.default)(ref.innerHTML, { format: 'text/html' });
-                        setCopiedHtml(true);
-                        setTimeout(() => setCopiedHtml(false), 1000);
+                        (0, copy_to_clipboard_1.default)(ref.textContent || '', { format: 'text/plain' });
+                        setCopied(true);
+                        setTimeout(() => setCopied(false), 1000);
                     }
-                } }, copiedHtml ? 'Copied to clipboard!' : 'Copy as HTML')),
-        react_1.default.createElement("div", { "data-testid": "feature_sequence" }, error ? (react_1.default.createElement(material_1.Typography, { color: "error" }, `${error}`)) : loading ? (react_1.default.createElement("div", null, "Loading gene sequence...")) : sequence ? (react_1.default.createElement(exports.SequencePanel, { ref: seqPanelRef, feature: parentFeature, mode: mode, sequence: sequence })) : (react_1.default.createElement("div", null, "No sequence found")))));
+                } }, copied ? 'Copied to clipboard!' : 'Copy as plaintext')),
+        react_1.default.createElement(material_1.FormControl, { className: classes.formControl },
+            react_1.default.createElement(material_1.Tooltip, { title: "Note that 'Copy as HTML' can retain the colors but cannot be pasted into some programs like notepad that only expect plain text" },
+                react_1.default.createElement(material_1.Button, { className: classes.button, type: "button", variant: "contained", onClick: () => {
+                        const ref = seqPanelRef.current;
+                        if (ref) {
+                            (0, copy_to_clipboard_1.default)(ref.innerHTML, { format: 'text/html' });
+                            setCopiedHtml(true);
+                            setTimeout(() => setCopiedHtml(false), 1000);
+                        }
+                    } }, copiedHtml ? 'Copied to clipboard!' : 'Copy as HTML'))),
+        react_1.default.createElement(material_1.FormControl, { className: classes.formControl },
+            react_1.default.createElement(material_1.IconButton, { onClick: () => setSettingsDlgOpen(true), style: { margin: 0, padding: 0 } },
+                react_1.default.createElement(Settings_1.default, null))),
+        react_1.default.createElement("br", null),
+        react_1.default.createElement(react_1.default.Fragment, null, error ? (react_1.default.createElement(material_1.Typography, { color: "error" }, `${error}`)) : loading ? (react_1.default.createElement(material_1.Typography, null, "Loading gene sequence...")) : sequence ? (react_1.default.createElement(exports.SequencePanel, { ref: seqPanelRef, feature: parentFeature, mode: mode, sequence: sequence, intronBp: intronBp })) : (react_1.default.createElement(material_1.Typography, null, "No sequence found"))),
+        settingsDlgOpen ? (react_1.default.createElement(SequenceFeatureSettingsDialog_1.default, { handleClose: arg => {
+                if (arg) {
+                    const { upDownBp, intronBp } = arg;
+                    setIntronBp(intronBp);
+                    setUpDownBp(upDownBp);
+                }
+                setSettingsDlgOpen(false);
+            }, upDownBp: upDownBp, intronBp: intronBp })) : null));
 }
 exports.default = SequenceFeatureDetails;

package/BaseFeatureWidget/SequenceFeatureSettingsDialog.d.ts

@@ -0,0 +1,9 @@
+/// <reference types="react" />
+export default function SequenceFeatureSettingsDialog({ handleClose, intronBp: intronBpArg, upDownBp: upDownBpArg, }: {
+    handleClose: (arg?: {
+        intronBp: number;
+        upDownBp: number;
+    }) => void;
+    intronBp: number;
+    upDownBp: number;
+}): JSX.Element;

package/BaseFeatureWidget/SequenceFeatureSettingsDialog.js

@@ -0,0 +1,71 @@
+"use strict";
+var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
+    if (k2 === undefined) k2 = k;
+    var desc = Object.getOwnPropertyDescriptor(m, k);
+    if (!desc || ("get" in desc ? !m.__esModule : desc.writable || desc.configurable)) {
+      desc = { enumerable: true, get: function() { return m[k]; } };
+    }
+    Object.defineProperty(o, k2, desc);
+}) : (function(o, m, k, k2) {
+    if (k2 === undefined) k2 = k;
+    o[k2] = m[k];
+}));
+var __setModuleDefault = (this && this.__setModuleDefault) || (Object.create ? (function(o, v) {
+    Object.defineProperty(o, "default", { enumerable: true, value: v });
+}) : function(o, v) {
+    o["default"] = v;
+});
+var __importStar = (this && this.__importStar) || function (mod) {
+    if (mod && mod.__esModule) return mod;
+    var result = {};
+    if (mod != null) for (var k in mod) if (k !== "default" && Object.prototype.hasOwnProperty.call(mod, k)) __createBinding(result, mod, k);
+    __setModuleDefault(result, mod);
+    return result;
+};
+var __importDefault = (this && this.__importDefault) || function (mod) {
+    return (mod && mod.__esModule) ? mod : { "default": mod };
+};
+Object.defineProperty(exports, "__esModule", { value: true });
+const react_1 = __importStar(require("react"));
+const material_1 = require("@mui/material");
+const mui_1 = require("tss-react/mui");
+// icons
+const Close_1 = __importDefault(require("@mui/icons-material/Close"));
+const useStyles = (0, mui_1.makeStyles)()(theme => ({
+    formElt: {
+        margin: theme.spacing(3),
+        width: 400,
+    },
+    closeButton: {
+        position: 'absolute',
+        right: theme.spacing(1),
+        top: theme.spacing(1),
+        color: theme.palette.grey[500],
+    },
+    dialogContent: {
+        width: '80em',
+    },
+}));
+function SequenceFeatureSettingsDialog({ handleClose, intronBp: intronBpArg, upDownBp: upDownBpArg, }) {
+    const { classes } = useStyles();
+    const [intronBp, setIntronBp] = (0, react_1.useState)(`${intronBpArg}`);
+    const [upDownBp, setUpDownBp] = (0, react_1.useState)(`${upDownBpArg}`);
+    const intronBpValid = !Number.isNaN(+intronBp);
+    const upDownBpValid = !Number.isNaN(+upDownBp);
+    return (react_1.default.createElement(material_1.Dialog, { maxWidth: "xl", open: true, onClose: () => handleClose() },
+        react_1.default.createElement(material_1.DialogTitle, null,
+            "Feature sequence settings",
+            handleClose ? (react_1.default.createElement(material_1.IconButton, { className: classes.closeButton, onClick: () => handleClose() },
+                react_1.default.createElement(Close_1.default, null))) : null),
+        react_1.default.createElement(material_1.Divider, null),
+        react_1.default.createElement(material_1.DialogContent, { className: classes.dialogContent },
+            react_1.default.createElement(material_1.TextField, { label: "Number of intronic bases around splice site to display", className: classes.formElt, value: intronBp, helperText: !intronBpValid ? 'Not a number' : '', error: !intronBpValid, onChange: event => setIntronBp(event.target.value) }),
+            react_1.default.createElement(material_1.TextField, { label: "Number of bases up/down stream of feature to display", className: classes.formElt, value: upDownBp, helperText: !upDownBpValid ? 'Not a number' : '', error: !upDownBpValid, onChange: event => setUpDownBp(event.target.value) })),
+        react_1.default.createElement(material_1.DialogActions, null,
+            react_1.default.createElement(material_1.Button, { onClick: () => handleClose({
+                    upDownBp: +upDownBp,
+                    intronBp: +intronBp,
+                }), disabled: !intronBpValid || !upDownBpValid, color: "primary", variant: "contained" }, "Submit"),
+            react_1.default.createElement(material_1.Button, { onClick: () => handleClose(), color: "secondary", autoFocus: true, variant: "contained" }, "Cancel"))));
+}
+exports.default = SequenceFeatureSettingsDialog;

package/BaseFeatureWidget/test_data/DLGAP3.d.ts

@@ -0,0 +1,80 @@
+declare namespace _default {
+    const source: string;
+    const type: string;
+    const start: number;
+    const end: number;
+    const strand: number;
+    const phase: number;
+    const refName: string;
+    const id: string;
+    const dbxref: string[];
+    const name: string;
+    const description: string;
+    const gbkey: string;
+    const gene: string;
+    const gene_biotype: string;
+    const gene_synonym: string[];
+    const subfeatures: {
+        source: string;
+        type: string;
+        start: number;
+        end: number;
+        strand: number;
+        phase: number;
+        refName: string;
+        id: string;
+        parent: string;
+        dbxref: string[];
+        name: string;
+        gbkey: string;
+        gene: string;
+        product: string;
+        tag: string;
+        transcript_id: string;
+        subfeatures: ({
+            source: string;
+            type: string;
+            start: number;
+            end: number;
+            strand: number;
+            phase: number;
+            refName: string;
+            parent: string;
+            dbxref: string[];
+            gbkey: string;
+            gene: string;
+            product: string;
+            tag: string;
+            transcript_id: string;
+            uniqueId: string;
+            parentId: string;
+            id?: undefined;
+            name?: undefined;
+            protein_id?: undefined;
+        } | {
+            source: string;
+            type: string;
+            start: number;
+            end: number;
+            strand: number;
+            phase: number;
+            refName: string;
+            id: string;
+            parent: string;
+            dbxref: string[];
+            name: string;
+            gbkey: string;
+            gene: string;
+            product: string;
+            protein_id: string;
+            tag: string;
+            uniqueId: string;
+            parentId: string;
+            transcript_id?: undefined;
+        })[];
+        uniqueId: string;
+        parentId: string;
+    }[];
+    const uniqueId: string;
+}
+export default _default;