Data · dataset · 2026
Genome annotation of Spartaeus platnicki
Listed in ScienceDB
Description
All datasets in this study are based on the Spartaeus platnicki genome assembly.Repetitive elements and transposable elements (TEs) were first identified using RepeatModeler v2.0.5 with LTR structure detection, then merged with Dfam v3.7 and RepBase release 20181026, and annotated across the genome using RepeatMasker v4.1.5. TE divergence was calculated with calcDivergenceFromAlign.pl.Non-coding RNAs (ncRNAs) were annotated using Infernal v1.1.5 against the Rfam database for rRNAs, snRNAs, and miRNAs, and tRNAscan-SE v2.0.12 for tRNAs, with high-confidence tRNAs filtered by EukHighConfidenceFilter.Protein-coding genes were predicted using MAKER v3.01.04, integrating ab initio predictions from BRAKER v3.0.6 (trained with Augustus v3.4.0 and GeneMark-ETP) and GeMoMa v1.9, as well as transcript evidence from HISAT2 v2.2.1 and StringTie v2.2.1.
Functional annotation was performed using Diamond v2.1.8 (UniProtKB), InterProScan v5.70 (Pfam v34), and eggNOG-mapper v2.1.13 (eggNOG v5.0).
Links
Where it is published
- DOI doi.org/10.57760/sciencedb.33657 ↗
DOI / persistent id · from scidb cn
Catalogue records · 1
- OAI-PMH record scidb.cn/oai?verb=GetRecord&metadataPrefix=oai_dc&identifier=10.57760%2… ↗
metadata API · from scidb cn
Topics
- From keywords
- Earth & Environmental Science · Engineering · Humanities · Life Sciences · Social Science
- Inferred from text
- Bioinformatics and computational biology 68%
Provenance · 1 source records, 11 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| ScienceDB | 10.57760/sciencedb.33657 | 12 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · scidb cn | connector:scidb_cn@1.0.0 | |
| concepts[field].anzsrc:group:3102 | enrichment · scidb cn | taxonomy-embedding@1.0.0 | title+keywords+description (68%) |
| concepts[field].local:field:earth-environmental | mapping · scidb cn | connector:scidb_cn@1.0.0 | |
| concepts[field].local:field:engineering | mapping · scidb cn | connector:scidb_cn@1.0.0 | |
| concepts[field].local:field:humanities | mapping · scidb cn | connector:scidb_cn@1.0.0 | |
| concepts[field].local:field:life-sciences | mapping · scidb cn | connector:scidb_cn@1.0.0 | |
| concepts[field].local:field:social-science | mapping · scidb cn | connector:scidb_cn@1.0.0 | |
| description | source · scidb cn | connector:scidb_cn@1.0.0 | /metadata/dc/description |
| license | source · scidb cn | connector:scidb_cn@1.0.0 | /metadata/dc/rights |
| publication_date | source · scidb cn | connector:scidb_cn@1.0.0 | |
| title | source · scidb cn | connector:scidb_cn@1.0.0 | /metadata/dc/title |