Data · dataset · 2024
Repeat annotation of Linum tenue
Listed in Researchdata.se and Swedish National Data Service — shown once because both records carry DOI 10.17044/scilifelab.24343000
Description
The file contains the annotation for the repetitive regions in Linum tenue . The detection of repeats has been done with RepeatMasker/RepeatModeler (repeatmasker.org/) using a custom repeat library. The genome has been deposited to ENA with the accession id: GCA_946122785 (
Project
Read the rest (3 more)
PRJEB52918). See link below. It is part of this article Gutiérrez-Valencia, J., Fracassetti, M., Berdan, E. L., Bunikis, I., Soler, L., Dainat, J., ... & Slotte, T. (2022).
Genomic analyses of the Linum distyly supergene reveal convergent evolution at the molecular level. Current Biology , 32 (20), 4360-4371. 10.1016/j.cub.2022.08.042 The file is in BED format converted with BEDOPS. The fourth (Repeat class) and eleventh (Repeat name) columns have been reversed to highlight the Repeat name in the visualization.
Query sequence 1 chromosome Query start 2 start Query end 3 stop Repeat class 4 id Smith-Waterman score 5 score Strand 6 strand Percentage, substitutions 7 Percentage, deleted bases 8 Percentage, inserted bases 9 Bases in query, past match 10 Repeat name 11 Bases in complement of the repeat consensus sequence 12 Match start 13 Match end 14 Unique ID 15 Higher-scoring match (optional) 16
Links
Where it is published
- DOI doi.org/10.17044/scilifelab.24343000 ↗
DOI / persistent id · from researchdata se
Catalogue records · 2
- OAI-PMH record api.researchdata.se/oai-pmh?verb=GetRecord&metadataPrefix=oai_dc&identifier=oai%3A… ↗
metadata API · from researchdata se
- OAI-PMH record snd.se/oai-pmh?verb=GetRecord&metadataPrefix=oai_dc&identifier=oai%3A… ↗
metadata API · from snd se
Topics
- From keywords
- Earth & Environmental Science · Earth & Environmental Science · Ecology · Ecology · Life Sciences · Life Sciences · Medicine & Health · Medicine & Health
Provenance · 2 source records, 13 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| Researchdata.se | oai:researchdata.se:doi-10-17044-scilifelab-24343000/0 | 13 d ago | JSON v1 |
| Swedish National Data Service | oai:researchdata.se:doi-10-17044-scilifelab-24343000/0 | 2 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · researchdata se | connector:researchdata_se@1.0.0 | |
| concepts[field].anzsrc:group:3103 | mapping · snd se | vocabulary-mapper@1.0.0 | keywords['Ecology'] |
| concepts[field].anzsrc:group:3103 | mapping · researchdata se | vocabulary-mapper@1.0.0 | keywords['Ecology'] |
| concepts[field].local:field:earth-environmental | mapping · snd se | connector:snd_se@1.0.0 | |
| concepts[field].local:field:earth-environmental | mapping · researchdata se | connector:researchdata_se@1.0.0 | |
| concepts[field].local:field:life-sciences | mapping · snd se | connector:snd_se@1.0.0 | |
| concepts[field].local:field:life-sciences | mapping · researchdata se | connector:researchdata_se@1.0.0 | |
| concepts[field].local:field:medicine-health | mapping · researchdata se | connector:researchdata_se@1.0.0 | |
| concepts[field].local:field:medicine-health | mapping · snd se | connector:snd_se@1.0.0 | |
| description | source · researchdata se | connector:researchdata_se@1.0.0 | /metadata/dc/description |
| license | source · researchdata se | connector:researchdata_se@1.0.0 | /metadata/dc/rights |
| publication_date | source · researchdata se | connector:researchdata_se@1.0.0 | |
| title | source · researchdata se | connector:researchdata_se@1.0.0 | /metadata/dc/title |