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 Ga0207684_10015444

Scaffold Ga0207684_10015444


Overview

Basic Information
Taxon OID3300025910 Open in IMG/M
Scaffold IDGa0207684_10015444 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-1 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6570
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (75.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

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?
F007952Metagenome / Metatranscriptome342N
F009258Metagenome / Metatranscriptome320Y

Sequences

Protein IDFamilyRBSSequence
Ga0207684_100154444F007952GAGVKRAQDPFILTATVNEALVRLDALMNRLVEADQTGSGIDPLRIANELGQIRQLLAEAPAVVRAKGGQKHFRCEACGTISHGERQPEKCPTCGGRKFFAADIEQPFVESGAG
Ga0207684_100154447F009258N/AVPVVLFVFALLGGAIAAIFAPLYLDRFRRELSRADEIEKIARGIGLRFSRTDPAYPGSSAFGYPFELFSRGIEQTCENFITGTVRGINVVAFDFLYRLRLDAEDAEGHARSEPIRFSCALATVAGVRPHVVIEPASTQLSDRADGEPVRLEWGDFNARYRVISPERGFAAALIDLDLMTWLVDEAPDLTLTWEIQRDEVLCRAPGLAPNDFAELLKALPEFARRIGPGASD
 ⦗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.