NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
x
This website uses cookies to improve user experience. By using NMPFamDB you consent to all cookies in accordance with our privacy policy. OK
Scaffold Ga0102859_1004253

Scaffold Ga0102859_1004253


Overview

Basic Information
Taxon OID3300007708 Open in IMG/M
Scaffold IDGa0102859_1004253 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1371B-02
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3361
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (80.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Intertidal Zone → Estuary → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameColumbia River Estuary, USA
CoordinatesLat. (o)46.2342Long. (o)-123.9167Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000706Metagenome / Metatranscriptome926Y
F000763Metagenome / Metatranscriptome901Y
F004977Metagenome / Metatranscriptome416Y
F025974Metagenome / Metatranscriptome199Y

Sequences

Protein IDFamilyRBSSequence
Ga0102859_100425310F004977N/ASAVTPATTTVLSGGAVAASPTLAQYKSAVCIKTATDTWYVVGAIA*
Ga0102859_10042533F000706GAGMSQSDFFTLYFASLGILGGLAGYVITHLLSEIKRLNSRVDEIYNILLDR*
Ga0102859_10042534F000763GGAGGMNMKNPTVLALGAFLAAWAATDFALDYRAVLWAVCSGVFGYASPKR*
Ga0102859_10042536F025974GGAGMPNPTRIEINCETGVESIIELTDAEVAELTYQAELAAEKKAEEDAAKAALEAKKLEVLAKLGLTSEEVAALLA*
 ⦗Top⦘



Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
© Pavlopoulos Lab, Bioinformatics & Integrative Biology | B.S.R.C. "Alexander Fleming" | Privacy Notice
Make sure JavaScript is enabled in your browser settings to achieve functionality.