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 Ga0207665_10016158

Scaffold Ga0207665_10016158


Overview

Basic Information
Taxon OID3300025939 Open in IMG/M
Scaffold IDGa0207665_10016158 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - LAR L11-2 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4900
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (100.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

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)42.4774Long. (o)-85.451Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002280Metagenome / Metatranscriptome575Y
F004423Metagenome / Metatranscriptome439Y
F009770Metagenome / Metatranscriptome313Y
F057718Metagenome / Metatranscriptome136Y

Sequences

Protein IDFamilyRBSSequence
Ga0207665_100161582F004423GGAGGVESLSELRERRGFQCRLTPDRVLGSVDEAEVFLRDRGLLTRTADCALPSLYEACHEDPYKIGGAGFAAWPATKWP
Ga0207665_100161583F057718AGGMRVVVTQIESDGTMWRRMVETAGRSDAGLWQELITRALAVPLPYRPAPGGPVYHLRLDDRDVMVAEHDLAGPLLDLVTAVLAKGDDV
Ga0207665_100161584F009770AGCAGGVHAAGRPGGSPGRRALAVILAIIGFLAIIEGILYLVGAANSLHFMAGSVHKGHHLIRAGVSFVAGAGLLAGAWFAARAGVNSRR
Ga0207665_100161589F002280AGGAGMPSNPPTPEYRRPSRLPAPDIAATASPTPGPADRLHRRQLEKSVSWSGRERLRGLWYRLRLTVAEMNYATRRMVELQAPWISDDHPGH
 ⦗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.