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 Ga0224569_100019

Scaffold Ga0224569_100019


Overview

Basic Information
Taxon OID3300022732 Open in IMG/M
Scaffold IDGa0224569_100019 Open in IMG/M
Source Dataset NameSpruce rhizosphere microbial communities from Bohemian Forest, Czech Republic ? CZU1
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)9627
Total Scaffold Genes13 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)12 (92.31%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Rhizosphere → Soil, Plant Litter And Rhizosphere Microbial Communities From European Coniferous Forests

Source Dataset Sampling Location
Location NameCzech Republic: South Bohemian Region
CoordinatesLat. (o)49.043Long. (o)13.6183Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000208Metagenome / Metatranscriptome1593Y
F002560Metagenome / Metatranscriptome548Y
F004412Metagenome / Metatranscriptome439Y

Sequences

Protein IDFamilyRBSSequence
Ga0224569_1000194F004412AGGAMENNLANAKQALPPEQVAAKAAILAACDHLAEAGITFVAAHFDGSGDEGVNEDIKCYATEDYACEQSEVQDVHFAHLQEHFETLVPYGYEDNCGGFGDVILNVRTRTITVERNDRFEDYTTSSYEV
Ga0224569_1000197F002560AGGAGGMVENNPPASAEYPRARVIPLPITLYVSGDLIFQRYEGGQSCRRFSIPWERLVPAKENELETGKQSSPTGMRTHQD
Ga0224569_1000198F000208GAGGMRIRVTTKADLFEKRKQQHIERGCRIEEERPIPVNGFCSFIAVSDISDSDGIGDLVAQALNGVGR
 ⦗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.