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 Ga0318560_10018034

Scaffold Ga0318560_10018034


Overview

Basic Information
Taxon OID3300031682 Open in IMG/M
Scaffold IDGa0318560_10018034 Open in IMG/M
Source Dataset NameTropical soil microbial communities from Luquillo Experimental Forest, Puerto Rico - GRE.SIPMG.065b5f22
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3182
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (87.50%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Forest Soil → Soil → Lab Enrichment Of Tropical Soil Microbial Communities From Luquillo Experimental Forest, Puerto Rico

Source Dataset Sampling Location
Location NamePuerto Rico: Rio Grande
CoordinatesLat. (o)18.321Long. (o)-65.8172Alt. (m)Depth (m)0
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F008335Metagenome / Metatranscriptome335Y
F024260Metagenome / Metatranscriptome206Y
F039327Metagenome / Metatranscriptome164Y

Sequences

Protein IDFamilyRBSSequence
Ga0318560_100180341F024260AGGGGGVLRQQSESADNRSNTAGQNGAIVNQAVHPSSAGERDGAETPATKTTRRAKKHWLDYATAFLTLAAAGGAITAAVFTGWQATTADQGLRDSNRAYVHSTNFRFVHYGAKNENGRTQWSVSPLIENTGSTGTRGMLMNTIISSAGEPDFASLEKAGFSPALILPKSDMTGAVFSMDGRGLDLLRGGGLIAMGI
Ga0318560_100180343F008335AGGMIVDLDSWEAGYGDGLLGRPSQRLPALDWFSYSSGYLQARARRAGTREDFRRRATRPSTQRAPRPHGGSSRLIII
Ga0318560_100180348F039327AGGAGMLTGTKFALCAAIVLGTAATASAATKRQKTTAYRSGLRVQMSAPRPAPPVNPYSPAATGGGTPG
 ⦗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.