Data · dataset · 2026
Genome annotation files of Heterobiantes geniculatus
Listed in ScienceDB
This dataset presents the genome annotation of Heterobiantes geniculatus, encompassing repetitive sequences, non-coding RNAs, protein-coding genes, and functional annotations.
Description
The dataset cover image is credited to Bosco Yuen.Repeat annotation was performed by constructing a species-specific repeat library using RepeatModeler v2.0.7 (with LTR structural detection enabled), followed by genome-wide identification and classification of repeat elements using RepeatMasker v4.2.2.
Based on the alignment results generated by RepeatMasker, the Kimura 2-Parameter divergence for each transposable element (TE) family was calculated using the calcDivergenceFromAlign.pl script to evaluate evolutionary dynamics.Non-coding RNA annotation was conducted using Infernal v1.1.5 against the Rfam database to identify rRNAs, snRNAs, and miRNAs. tRNAs were predicted using tRNAscan-SE v2.0.12, and high-confidence candidates were filtered using the EukHighConfidenceFilter script.Protein-coding gene annotation was based on the MAKER v3.01.04 pipeline, which integrated multiple lines of evidence.
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First, transcriptome data was assembled using StringTie v3.0.1 to generate transcript evidence. Second, ab initio and homology-based predictions were performed using BRAKER v3.0.6 (incorporating Augustus and GeneMark-ETP) and GeMoMa v1.9. Finally, protein-coding gene structures were generated by integrating transcript, homologous protein, and ab initio prediction results.Functional annotation was achieved by aligning sequences against the UniProtKB v202503 database using DIAMOND v2.1.7.161 (high-sensitivity mode) to obtain sequence similarity information.
Conserved protein domains were identified using InterPro v5.70-102.0 (Pfam database), and GO classification and KEGG pathway annotations were completed using eggNOG-mapper v2.1.12 (eggNOG v5.0.2 database).
Links
Where it is published
- DOI doi.org/10.57760/sciencedb.35268 ↗
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
- Evolutionary biology 75% · Image 75%
Provenance · 1 source records, 12 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| ScienceDB | 10.57760/sciencedb.35268 | 11 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · scidb cn | connector:scidb_cn@1.0.0 | |
| concepts[field].anzsrc:group:3104 | enrichment · scidb cn | taxonomy-embedding@1.0.0 | title+keywords+description (75%) |
| 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 | |
| concepts[modality].local:modality:image | enrichment · scidb cn | keyword-concept-rules@1.0.0 | title+description (75%) |
| 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 |