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 Ga0070682_100000035

Scaffold Ga0070682_100000035


Overview

Basic Information
Taxon OID3300005337 Open in IMG/M
Scaffold IDGa0070682_100000035 Open in IMG/M
Source Dataset NameCorn rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS C6-3L metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)150016
Total Scaffold Genes161 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)86 (53.42%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Agricultural Soil → Corn 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?
F002324Metagenome571Y
F013424Metagenome / Metatranscriptome271Y
F013826Metagenome / Metatranscriptome268Y
F019376Metagenome / Metatranscriptome230Y
F025120Metagenome / Metatranscriptome203Y

Sequences

Protein IDFamilyRBSSequence
Ga0070682_100000035117F019376GGAGGMKDLKQSPRLDIARGPNRSVSLQIRDYQVTVKVKSPVPQIKSPLVRWTLR*
Ga0070682_100000035123F013424AGGAGGMARGGGKAPKQITWVICLVLYLVALLAHFGVVRVSGNLADWAWIIGFGLLLAAVQIRGL*
Ga0070682_100000035150F013826N/AMAVCWRCPRCGEVSCEDDANAAGHPLACDHCERPFPPTETRCTVCDAPNPWSRRDTLHYWCTECGNTQTFYSDRRAS*
Ga0070682_100000035151F002324GGAGGMGEIKLFQICYEGDLTVEVSQIMRKLGAEPNFDQSWQVWLPDGRHAAPLVRYLRSHLGADARLLVANTQFTTARDFLLVRHSLTPDADYRELHEAMEYLGMVVPLPFESTFVIQSDDRTDVQTLGAALSELCPDESLMLNGISHDWAYSNSGTSRMYVADSLEELSFRTF*
Ga0070682_10000003555F025120N/AVSGKRLIIGVIVMGIALPLTIFYLLGLQTFGQFFTIAASTFLAWGVFDVLATIMERPRLQGRSPGHAIREDWERRQNE*
 ⦗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.