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 Ga0265336_10000189

Scaffold Ga0265336_10000189


Overview

Basic Information
Taxon OID3300028666 Open in IMG/M
Scaffold IDGa0265336_10000189 Open in IMG/M
Source Dataset NameRhizosphere microbial communities from Carex aquatilis grown in University of Washington, Seatle, WA, United States - 4-21-19 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)42983
Total Scaffold Genes47 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)25 (53.19%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Soil → Unclassified → Rhizosphere → Rhizosphere Microbial Communities From Carex Aquatilis Grown In University Of Washington, Seatle, Wa, United States

Source Dataset Sampling Location
Location NameUSA: Seattle, Washington
CoordinatesLat. (o)47.6516Long. (o)-122.3045Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F012876Metagenome / Metatranscriptome276Y
F023612Metagenome / Metatranscriptome209Y

Sequences

Protein IDFamilyRBSSequence
Ga0265336_1000018942F012876AGGAGMNSTRTRIAAFALSVLMSLGVVAGMNGIATTQYAAADSLAMAAYGQAHVAVQHVTVIGRRANA
Ga0265336_100001896F023612GGAGMGHSLSTGRRARASHRIAALALLTALTGGAHAEGLSLRTLEGGYGTHPTAEYALTNFHAPASSIRLFGDYYFFDPAQGNMGPTLGSLVGGFRASTGVVGLAPPLTLFETRPDPLQNVPYIGLGYSHLWFNSQLSLNADFGLASQNHGHGLFNSASSLDDVTSQLRWAPVMAVNVRYSF
 ⦗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.