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 Ga0184604_10107238

Scaffold Ga0184604_10107238


Overview

Basic Information
Taxon OID3300018000 Open in IMG/M
Scaffold IDGa0184604_10107238 Open in IMG/M
Source Dataset NameGroundwater sediment microbial communities from an aquifer in East River, Colorado, USA - PLM0_5_coex
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)874
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Sediment → Unclassified → Unclassified → Groundwater Sediment → Soil And Sediment Microbial Communities From The East River, Co, Usa

Source Dataset Sampling Location
Location NameUSA: East River, Colorado
CoordinatesLat. (o)38.9195Long. (o)-106.9496Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000280Metagenome / Metatranscriptome1383Y
F002111Metagenome / Metatranscriptome592Y
F007262Metagenome / Metatranscriptome354Y

Sequences

Protein IDFamilyRBSSequence
Ga0184604_101072381F000280AGAAGGMAQNQDDQPRPARPLVGYRDVGEDIRHGPSAIRRAWIVLAILIVIYLAWTLTVYFLEPGL
Ga0184604_101072382F002111AGAAGMVVASVLPFVSYSSMTETLIPAAEWPTVYSSLQALKGHVQEYPGCQGFDVFVRAEGDGDVLVQCYTTWDTAGQLEVFLERGYTFERLLADIGSGLGPGRSLVMEKVF
Ga0184604_101072383F007262N/AYRTTRQRTGIYPVDSFGGWTTEGAGPATGFFLLFTAIVVGFAVALIVGHIVWGQKF
 ⦗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.