comparison test-data/Caenorhabditis_elegans.WBcel235.33.chromosome.I_shortened.json @ 1:befe6021e476 draft default tip

planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/master/tools/gff3_to_json commit 5e5fbe362ed5a4714debda0f2c0834cbbfd34147
author earlhaminst
date Tue, 28 Feb 2017 12:06:04 -0500
parents be6cec883b02
children
comparison
equal deleted inserted replaced
0:be6cec883b02 1:befe6021e476
1 { 1 {"WBGene00022276": {"Name": "nlp-40", "Transcript": [{"Exon": [{"Name": "Y74C9A.2a.2.e1", "Parent": "Y74C9A.2a.2", "constitutive": "0", "end": 10585, "ensembl_end_phase": "-1", "ensembl_phase": "-1", "exon_id": "Y74C9A.2a.2.e1", "id": "Y74C9A.2a.2.e1", "length": 173, "object_type": "Exon", "rank": "1", "seq_region_name": "I", "species": "caenorhabditiselegans", "start": 10413, "strand": 1}, {"Name": "Y74C9A.2a.1.e1", "Parent": "Y74C9A.2a.2", "constitutive": "0", "end": 11689, "ensembl_end_phase": "1", "ensembl_phase": "-1", "exon_id": "Y74C9A.2a.1.e1", "id": "Y74C9A.2a.1.e1", "length": 72, "object_type": "Exon", "rank": "2", "seq_region_name": "I", "species": "caenorhabditiselegans", "start": 11618, "strand": 1}, {"Name": "Y74C9A.2a.1.e2", "Parent": "Y74C9A.2a.2", "constitutive": "0", "end": 15160, "ensembl_end_phase": "1", "ensembl_phase": "1", "exon_id": "Y74C9A.2a.1.e2", "id": "Y74C9A.2a.1.e2", "length": 210, "object_type": "Exon", "rank": "3", "seq_region_name": "I", "species": "caenorhabditiselegans", "start": 14951, "strand": 1}, {"Name": "Y74C9A.2a.1.e3", "Parent": "Y74C9A.2a.2", "constitutive": "0", "end": 16842, "ensembl_end_phase": "-1", "ensembl_phase": "1", "exon_id": "Y74C9A.2a.1.e3", "id": "Y74C9A.2a.1.e3", "length": 370, "object_type": "Exon", "rank": "4", "seq_region_name": "I", "species": "caenorhabditiselegans", "start": 16473, "strand": 1}], "Name": "Y74C9A.2a.2", "Parent": "WBGene00022276", "Translation": {"CDS": [{"Parent": "Y74C9A.2a.2", "end": 11689, "id": "Y74C9A.2a.2", "protein_id": "Y74C9A.2a.2", "start": 11641, "strand": 1}, {"Parent": "Y74C9A.2a.2", "end": 15160, "id": "Y74C9A.2a.2", "protein_id": "Y74C9A.2a.2", "start": 14951, "strand": 1}, {"Parent": "Y74C9A.2a.2", "end": 16585, "id": "Y74C9A.2a.2", "protein_id": "Y74C9A.2a.2", "start": 16473, "strand": 1}], "end": 16585, "id": "Y74C9A.2a.2", "object_type": "Translation", "species": "caenorhabditiselegans", "start": 11641}, "biotype": "protein_coding", "end": 16842, "id": "Y74C9A.2a.2", "object_type": "Transcript", "seq_region_name": "I", "species": "caenorhabditiselegans", "start": 10413, "strand": 1, "transcript_id": "Y74C9A.2a.2"}], "biotype": "protein_coding", "description": "Neuropeptide-Like Protein [Source:RefSeq peptide%3BAcc:NP_001293206]", "end": 16842, "gene_id": "WBGene00022276", "id": "WBGene00022276", "logic_name": "wormbase", "member_id": 0, "object_type": "Gene", "seq_region_name": "I", "species": "caenorhabditiselegans", "start": 10413, "strand": 1}, "WBGene00022278": {"Name": "rcor-1", "Transcript": [{"Exon": [{"Name": "Y74C9A.4a.e12", "Parent": "Y74C9A.4d", "constitutive": "1", "end": 17958, "ensembl_end_phase": "-1", "ensembl_phase": "0", "exon_id": "Y74C9A.4a.e12", "id": "Y74C9A.4a.e12", "length": 476, "object_type": "Exon", "rank": "7", "seq_region_name": "I", "species": "caenorhabditiselegans", "start": 17483, "strand": -1}, {"Name": "Y74C9A.4a.e11", "Parent": "Y74C9A.4d", "constitutive": "1", "end": 18115, "ensembl_end_phase": "0", "ensembl_phase": "1", "exon_id": "Y74C9A.4a.e11", "id": "Y74C9A.4a.e11", "length": 110, "object_type": "Exon", "rank": "6", "seq_region_name": "I", "species": "caenorhabditiselegans", "start": 18006, "strand": -1}, {"Name": "Y74C9A.4a.e10", "Parent": "Y74C9A.4d", "constitutive": "1", "end": 19241, "ensembl_end_phase": "1", "ensembl_phase": "2", "exon_id": "Y74C9A.4a.e10", "id": "Y74C9A.4a.e10", "length": 227, "object_type": "Exon", "rank": "5", "seq_region_name": "I", "species": "caenorhabditiselegans", "start": 19015, "strand": -1}, {"Name": "Y74C9A.4a.e9", "Parent": "Y74C9A.4d", "constitutive": "1", "end": 20478, "ensembl_end_phase": "2", "ensembl_phase": "1", "exon_id": "Y74C9A.4a.e9", "id": "Y74C9A.4a.e9", "length": 208, "object_type": "Exon", "rank": "4", "seq_region_name": "I", "species": "caenorhabditiselegans", "start": 20271, "strand": -1}, {"Name": "Y74C9A.4a.e8", "Parent": "Y74C9A.4d", "constitutive": "1", "end": 20964, "ensembl_end_phase": "1", "ensembl_phase": "1", "exon_id": "Y74C9A.4a.e8", "id": "Y74C9A.4a.e8", "length": 117, "object_type": "Exon", "rank": "3", "seq_region_name": "I", "species": "caenorhabditiselegans", "start": 20848, "strand": -1}, {"Name": "Y74C9A.4d.e2", "Parent": "Y74C9A.4d", "constitutive": "0", "end": 21136, "ensembl_end_phase": "1", "ensembl_phase": "-1", "exon_id": "Y74C9A.4d.e2", "id": "Y74C9A.4d.e2", "length": 124, "object_type": "Exon", "rank": "2", "seq_region_name": "I", "species": "caenorhabditiselegans", "start": 21013, "strand": -1}, {"Name": "Y74C9A.4d.e1", "Parent": "Y74C9A.4d", "constitutive": "0", "end": 24796, "ensembl_end_phase": "-1", "ensembl_phase": "-1", "exon_id": "Y74C9A.4d.e1", "id": "Y74C9A.4d.e1", "length": 146, "object_type": "Exon", "rank": "1", "seq_region_name": "I", "species": "caenorhabditiselegans", "start": 24651, "strand": -1}], "Name": "Y74C9A.4d", "Parent": "WBGene00022278", "Translation": {"CDS": [{"Parent": "Y74C9A.4d", "end": 17958, "id": "Y74C9A.4d", "protein_id": "Y74C9A.4d", "start": 17911, "strand": -1}, {"Parent": "Y74C9A.4d", "end": 18115, "id": "Y74C9A.4d", "protein_id": "Y74C9A.4d", "start": 18006, "strand": -1}, {"Parent": "Y74C9A.4d", "end": 19241, "id": "Y74C9A.4d", "protein_id": "Y74C9A.4d", "start": 19015, "strand": -1}, {"Parent": "Y74C9A.4d", "end": 20478, "id": "Y74C9A.4d", "protein_id": "Y74C9A.4d", "start": 20271, "strand": -1}, {"Parent": "Y74C9A.4d", "end": 20964, "id": "Y74C9A.4d", "protein_id": "Y74C9A.4d", "start": 20848, "strand": -1}, {"Parent": "Y74C9A.4d", "end": 21127, "id": "Y74C9A.4d", "protein_id": "Y74C9A.4d", "start": 21013, "strand": -1}], "end": 21127, "id": "Y74C9A.4d", "object_type": "Translation", "species": "caenorhabditiselegans", "start": 17911}, "biotype": "protein_coding", "end": 24796, "id": "Y74C9A.4d", "object_type": "Transcript", "seq_region_name": "I", "species": "caenorhabditiselegans", "start": 17483, "strand": -1, "transcript_id": "Y74C9A.4d"}], "biotype": "protein_coding", "description": "RCOR (REST CO-Repressor) homolog [Source:RefSeq peptide%3BAcc:NP_001293207]", "end": 26781, "gene_id": "WBGene00022278", "id": "WBGene00022278", "logic_name": "wormbase", "member_id": 1, "object_type": "Gene", "seq_region_name": "I", "species": "caenorhabditiselegans", "start": 17483, "strand": -1}}
2 "gene:WBGene00022276": {
3 "Name": "nlp-40",
4 "Transcript": [
5 {
6 "Exon": [
7 {
8 "Name": "Y74C9A.2a.2.e1",
9 "Parent": "transcript:Y74C9A.2a.2",
10 "constitutive": "0",
11 "end": 10585,
12 "ensembl_end_phase": "-1",
13 "ensembl_phase": "-1",
14 "exon_id": "Y74C9A.2a.2.e1",
15 "id": "Y74C9A.2a.2.e1",
16 "length": 173,
17 "object_type": "Exon",
18 "rank": "1",
19 "seq_region_name": "I",
20 "species": "caenorhabditiselegans",
21 "start": 10413,
22 "strand": 1
23 },
24 {
25 "Name": "Y74C9A.2a.1.e1",
26 "Parent": "transcript:Y74C9A.2a.2",
27 "constitutive": "0",
28 "end": 11689,
29 "ensembl_end_phase": "1",
30 "ensembl_phase": "-1",
31 "exon_id": "Y74C9A.2a.1.e1",
32 "id": "Y74C9A.2a.1.e1",
33 "length": 72,
34 "object_type": "Exon",
35 "rank": "2",
36 "seq_region_name": "I",
37 "species": "caenorhabditiselegans",
38 "start": 11618,
39 "strand": 1
40 },
41 {
42 "Name": "Y74C9A.2a.1.e2",
43 "Parent": "transcript:Y74C9A.2a.2",
44 "constitutive": "0",
45 "end": 15160,
46 "ensembl_end_phase": "1",
47 "ensembl_phase": "1",
48 "exon_id": "Y74C9A.2a.1.e2",
49 "id": "Y74C9A.2a.1.e2",
50 "length": 210,
51 "object_type": "Exon",
52 "rank": "3",
53 "seq_region_name": "I",
54 "species": "caenorhabditiselegans",
55 "start": 14951,
56 "strand": 1
57 },
58 {
59 "Name": "Y74C9A.2a.1.e3",
60 "Parent": "transcript:Y74C9A.2a.2",
61 "constitutive": "0",
62 "end": 16842,
63 "ensembl_end_phase": "-1",
64 "ensembl_phase": "1",
65 "exon_id": "Y74C9A.2a.1.e3",
66 "id": "Y74C9A.2a.1.e3",
67 "length": 370,
68 "object_type": "Exon",
69 "rank": "4",
70 "seq_region_name": "I",
71 "species": "caenorhabditiselegans",
72 "start": 16473,
73 "strand": 1
74 }
75 ],
76 "Name": "Y74C9A.2a.2",
77 "Parent": "gene:WBGene00022276",
78 "Translation": {
79 "CDS": [
80 {
81 "Parent": "transcript:Y74C9A.2a.2",
82 "end": 11689,
83 "id": "CDS:Y74C9A.2a.2",
84 "protein_id": "Y74C9A.2a.2",
85 "start": 11641,
86 "strand": 1
87 },
88 {
89 "Parent": "transcript:Y74C9A.2a.2",
90 "end": 15160,
91 "id": "CDS:Y74C9A.2a.2",
92 "protein_id": "Y74C9A.2a.2",
93 "start": 14951,
94 "strand": 1
95 },
96 {
97 "Parent": "transcript:Y74C9A.2a.2",
98 "end": 16585,
99 "id": "CDS:Y74C9A.2a.2",
100 "protein_id": "Y74C9A.2a.2",
101 "start": 16473,
102 "strand": 1
103 }
104 ],
105 "end": 16585,
106 "id": "CDS:Y74C9A.2a.2",
107 "object_type": "Translation",
108 "species": "caenorhabditiselegans",
109 "start": 11641
110 },
111 "biotype": "protein_coding",
112 "end": 16842,
113 "id": "transcript:Y74C9A.2a.2",
114 "object_type": "Transcript",
115 "seq_region_name": "I",
116 "species": "caenorhabditiselegans",
117 "start": 10413,
118 "strand": 1,
119 "transcript_id": "Y74C9A.2a.2"
120 }
121 ],
122 "biotype": "protein_coding",
123 "description": "Neuropeptide-Like Protein [Source:RefSeq peptide%3BAcc:NP_001293206]",
124 "end": 16842,
125 "gene_id": "WBGene00022276",
126 "id": "gene:WBGene00022276",
127 "logic_name": "wormbase",
128 "member_id": 0,
129 "object_type": "Gene",
130 "seq_region_name": "I",
131 "species": "caenorhabditiselegans",
132 "start": 10413,
133 "strand": 1
134 },
135 "gene:WBGene00022278": {
136 "Name": "rcor-1",
137 "Transcript": [
138 {
139 "Exon": [
140 {
141 "Name": "Y74C9A.4a.e12",
142 "Parent": "transcript:Y74C9A.4d",
143 "constitutive": "1",
144 "end": 17958,
145 "ensembl_end_phase": "-1",
146 "ensembl_phase": "0",
147 "exon_id": "Y74C9A.4a.e12",
148 "id": "Y74C9A.4a.e12",
149 "length": 476,
150 "object_type": "Exon",
151 "rank": "7",
152 "seq_region_name": "I",
153 "species": "caenorhabditiselegans",
154 "start": 17483,
155 "strand": -1
156 },
157 {
158 "Name": "Y74C9A.4a.e11",
159 "Parent": "transcript:Y74C9A.4d",
160 "constitutive": "1",
161 "end": 18115,
162 "ensembl_end_phase": "0",
163 "ensembl_phase": "1",
164 "exon_id": "Y74C9A.4a.e11",
165 "id": "Y74C9A.4a.e11",
166 "length": 110,
167 "object_type": "Exon",
168 "rank": "6",
169 "seq_region_name": "I",
170 "species": "caenorhabditiselegans",
171 "start": 18006,
172 "strand": -1
173 },
174 {
175 "Name": "Y74C9A.4a.e10",
176 "Parent": "transcript:Y74C9A.4d",
177 "constitutive": "1",
178 "end": 19241,
179 "ensembl_end_phase": "1",
180 "ensembl_phase": "2",
181 "exon_id": "Y74C9A.4a.e10",
182 "id": "Y74C9A.4a.e10",
183 "length": 227,
184 "object_type": "Exon",
185 "rank": "5",
186 "seq_region_name": "I",
187 "species": "caenorhabditiselegans",
188 "start": 19015,
189 "strand": -1
190 },
191 {
192 "Name": "Y74C9A.4a.e9",
193 "Parent": "transcript:Y74C9A.4d",
194 "constitutive": "1",
195 "end": 20478,
196 "ensembl_end_phase": "2",
197 "ensembl_phase": "1",
198 "exon_id": "Y74C9A.4a.e9",
199 "id": "Y74C9A.4a.e9",
200 "length": 208,
201 "object_type": "Exon",
202 "rank": "4",
203 "seq_region_name": "I",
204 "species": "caenorhabditiselegans",
205 "start": 20271,
206 "strand": -1
207 },
208 {
209 "Name": "Y74C9A.4a.e8",
210 "Parent": "transcript:Y74C9A.4d",
211 "constitutive": "1",
212 "end": 20964,
213 "ensembl_end_phase": "1",
214 "ensembl_phase": "1",
215 "exon_id": "Y74C9A.4a.e8",
216 "id": "Y74C9A.4a.e8",
217 "length": 117,
218 "object_type": "Exon",
219 "rank": "3",
220 "seq_region_name": "I",
221 "species": "caenorhabditiselegans",
222 "start": 20848,
223 "strand": -1
224 },
225 {
226 "Name": "Y74C9A.4d.e2",
227 "Parent": "transcript:Y74C9A.4d",
228 "constitutive": "0",
229 "end": 21136,
230 "ensembl_end_phase": "1",
231 "ensembl_phase": "-1",
232 "exon_id": "Y74C9A.4d.e2",
233 "id": "Y74C9A.4d.e2",
234 "length": 124,
235 "object_type": "Exon",
236 "rank": "2",
237 "seq_region_name": "I",
238 "species": "caenorhabditiselegans",
239 "start": 21013,
240 "strand": -1
241 },
242 {
243 "Name": "Y74C9A.4d.e1",
244 "Parent": "transcript:Y74C9A.4d",
245 "constitutive": "0",
246 "end": 24796,
247 "ensembl_end_phase": "-1",
248 "ensembl_phase": "-1",
249 "exon_id": "Y74C9A.4d.e1",
250 "id": "Y74C9A.4d.e1",
251 "length": 146,
252 "object_type": "Exon",
253 "rank": "1",
254 "seq_region_name": "I",
255 "species": "caenorhabditiselegans",
256 "start": 24651,
257 "strand": -1
258 }
259 ],
260 "Name": "Y74C9A.4d",
261 "Parent": "gene:WBGene00022278",
262 "Translation": {
263 "CDS": [
264 {
265 "Parent": "transcript:Y74C9A.4d",
266 "end": 17958,
267 "id": "CDS:Y74C9A.4d",
268 "protein_id": "Y74C9A.4d",
269 "start": 17911,
270 "strand": -1
271 },
272 {
273 "Parent": "transcript:Y74C9A.4d",
274 "end": 18115,
275 "id": "CDS:Y74C9A.4d",
276 "protein_id": "Y74C9A.4d",
277 "start": 18006,
278 "strand": -1
279 },
280 {
281 "Parent": "transcript:Y74C9A.4d",
282 "end": 19241,
283 "id": "CDS:Y74C9A.4d",
284 "protein_id": "Y74C9A.4d",
285 "start": 19015,
286 "strand": -1
287 },
288 {
289 "Parent": "transcript:Y74C9A.4d",
290 "end": 20478,
291 "id": "CDS:Y74C9A.4d",
292 "protein_id": "Y74C9A.4d",
293 "start": 20271,
294 "strand": -1
295 },
296 {
297 "Parent": "transcript:Y74C9A.4d",
298 "end": 20964,
299 "id": "CDS:Y74C9A.4d",
300 "protein_id": "Y74C9A.4d",
301 "start": 20848,
302 "strand": -1
303 },
304 {
305 "Parent": "transcript:Y74C9A.4d",
306 "end": 21127,
307 "id": "CDS:Y74C9A.4d",
308 "protein_id": "Y74C9A.4d",
309 "start": 21013,
310 "strand": -1
311 }
312 ],
313 "end": 21127,
314 "id": "CDS:Y74C9A.4d",
315 "object_type": "Translation",
316 "species": "caenorhabditiselegans",
317 "start": 17911
318 },
319 "biotype": "protein_coding",
320 "end": 24796,
321 "id": "transcript:Y74C9A.4d",
322 "object_type": "Transcript",
323 "seq_region_name": "I",
324 "species": "caenorhabditiselegans",
325 "start": 17483,
326 "strand": -1,
327 "transcript_id": "Y74C9A.4d"
328 }
329 ],
330 "biotype": "protein_coding",
331 "description": "RCOR (REST CO-Repressor) homolog [Source:RefSeq peptide%3BAcc:NP_001293207]",
332 "end": 26781,
333 "gene_id": "WBGene00022278",
334 "id": "gene:WBGene00022278",
335 "logic_name": "wormbase",
336 "member_id": 1,
337 "object_type": "Gene",
338 "seq_region_name": "I",
339 "species": "caenorhabditiselegans",
340 "start": 17483,
341 "strand": -1
342 }
343 }