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 Ga0209274_10000115

Scaffold Ga0209274_10000115


Overview

Basic Information
Taxon OID3300027853 Open in IMG/M
Scaffold IDGa0209274_10000115 Open in IMG/M
Source Dataset NameReference soil microbial communities from the Hubbard Brook experimental Forest, New Hampshire, USA - Hubbard Brook CCASE Soil Metagenome REF1 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)68575
Total Scaffold Genes80 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)72 (90.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Forest Soil → Soil → Soil Microbial Communities From The Hubbard Brook Experimental Forest, New Hampshire, Under Manipulated Climate Change Conditions.

Source Dataset Sampling Location
Location NameUSA: New Hampshire, Hubbard Brook experimental Forest
CoordinatesLat. (o)Long. (o)Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001114Metagenome / Metatranscriptome774Y
F015675Metagenome / Metatranscriptome253Y
F016191Metagenome / Metatranscriptome249Y

Sequences

Protein IDFamilyRBSSequence
Ga0209274_1000011514F016191GGAMKRIASLSILFAALIEFAIERARFDLWIVAVLAVVALLWKVVERALRSHIDSQKRDNRASVSR
Ga0209274_1000011557F001114GGAMNNQHCFISAGQFHPDPYTQSRNAERTLNAAIVHADISRSYEEYLEIFDEFYADDIEGSSETMKEPLRGKERVRSLLFGFLAPLHAMAEVGGVSISIRETAIPGDATDETHSAWTLELVGVSGKLCSVNWRILRKWNESRVVLEHHYDYQQSGEPLTDRDLRFDCA
Ga0209274_100001159F015675GAGMLTNHEPDRNIEDLTDTEIYDAIRYLEPDPKTAKEMREDDRQKDNGVVICVCLYIVLLGCLAFVWLCWG
 ⦗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.