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 Ga0207708_10000007

Scaffold Ga0207708_10000007


Overview

Basic Information
Taxon OID3300026075 Open in IMG/M
Scaffold IDGa0207708_10000007 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-10-1 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)264612
Total Scaffold Genes229 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)127 (55.46%)
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
Environmental → Terrestrial → Soil → Loam → Agricultural Soil → Corn, Switchgrass And Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameUSA: Michigan: Kellogg Biological Station
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001750Metagenome / Metatranscriptome642Y
F011178Metagenome / Metatranscriptome294Y
F048553Metagenome148Y

Sequences

Protein IDFamilyRBSSequence
Ga0207708_10000007180F011178GGAGMKVTIKERDAGLRERLQERLDRAARLRCDEHGEPVVEVTISDRENGWFDSRWTTCCDSLERQASLIVKERC
Ga0207708_10000007198F048553GAGMLFTVEERHLTDMNGRPIAAPQAVSFHHCDAETIDDAVHLYIKKDEGELIGSVLKFPGFQAVATMRKASGVYTLQFTPASQRDFRVP
Ga0207708_100000072F001750GAGMAKVTADIPNELSRQIDRIIRDGWFPDQESIVREALLQFVDAKSFLGDSPRMLHRFAADALNDSKPDVALKFVNRAVSLLSQQKITDFALYQALVELRVQILLVMGREDDALVSLEEAREHLPNNPTVAKWIEKLHKNKPRGEA
 ⦗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.