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 Ga0209168_10001219

Scaffold Ga0209168_10001219


Overview

Basic Information
Taxon OID3300027986 Open in IMG/M
Scaffold IDGa0209168_10001219 Open in IMG/M
Source Dataset NameSurface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen07_05102014_R1 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)20932
Total Scaffold Genes24 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)20 (83.33%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Surface Soil → Surface Soil Microbial Communities From Centralia Pennsylvania, Which Are Recovering From An Underground Coalmine Fire.

Source Dataset Sampling Location
Location NameUSA: Pennsylvania, Centralia
CoordinatesLat. (o)40.7999Long. (o)-76.3402Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000042Metagenome / Metatranscriptome3762Y
F000272Metagenome / Metatranscriptome1408Y
F004586Metagenome / Metatranscriptome432Y
F075195Metagenome / Metatranscriptome119Y

Sequences

Protein IDFamilyRBSSequence
Ga0209168_1000121915F000272AGGAGMPQTIAEKTADQIAESVHQASRVTSAVADAIEDGVGVMKRAAKQGGDAAEEILADTAQRLQRHPLLTVATTFAVGFTAGAVIGWMIKQR
Ga0209168_100012192F000042AGGAMKNIKFVVRVNRGGTRAPQYVQRIDPTPIHMTTNRKLALLMGRFTAEDAVESLRNSRCIPELELVQVSA
Ga0209168_100012198F075195GGALNRVQIGSDNCVKVRDLGFKALVHIKMYGERFEIVSDPFDEGDCIVVRATSGNDPEIRILRLPIAILVGRADRFQK
Ga0209168_100012199F004586AGGAGMTTNEQNKCAHLPCECLAQPGEKYCGQACKEAGSSEVEIACQCDHGSCPLTA
 ⦗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.