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 Ga0308392_1000408

Scaffold Ga0308392_1000408


Overview

Basic Information
Taxon OID3300031517 Open in IMG/M
Scaffold IDGa0308392_1000408 Open in IMG/M
Source Dataset NameHot spring phototrophic mat microbial communities from Octopus Spring, Yellowstone National Park, Wyoming, United States - 20050624_m2
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)18042
Total Scaffold Genes23 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (39.13%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Thermal Springs → Hot (42-90C) → Unclassified → Hot Spring Phototrophic Mat → Phototrophic Mat Microbial And Viral Communities From Various Hot Springs In Yellowstone National Park, Wyoming, United States

Source Dataset Sampling Location
Location NameUSA: Wyoming
CoordinatesLat. (o)44.5341Long. (o)-110.798Alt. (m)Depth (m)0
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F009254Metagenome / Metatranscriptome320N
F013065Metagenome / Metatranscriptome274N
F020182Metagenome / Metatranscriptome225N

Sequences

Protein IDFamilyRBSSequence
Ga0308392_100040819F013065N/AMARRTARDATIAIQLGGVDDGSAITWGAATQIEGKCSEISIDYRSQNVNLAGLSDAYARMRSAGAAEYTIRIRAFIPTDSFDFYASGNPPLHYRARVRIKPRSTLTTDAEYTGVITRWSWSAQAGQEQIEEIEIVGPLDV
Ga0308392_100040821F009254N/AMELRDLEAYLRNFLARVVGVPIVDAPAQLPVGSSVAGVLSLQSREAGKAIGGIRAVYQLELLASDAIPDAERRRLYETLASQIIRTELAAERDWLPMLDYQVYLEELNSERLRVRLEVEWNADE
Ga0308392_10004088F020182N/AVSIGEIVSAIHEERLQDAVRLLLARECVVTVYARRMLLVEFQGRVALLAPWESAASLTRKLHALFGLTQSAQPCGGCPGRGGFPS
 ⦗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.