NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0207650_10000410

Scaffold Ga0207650_10000410


Overview

Basic Information
Taxon OID3300025925 Open in IMG/M
Scaffold IDGa0207650_10000410 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS S6-3 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)38169
Total Scaffold Genes38 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)24 (63.16%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Soil → Unclassified → Switchgrass 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
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F016574Metagenome / Metatranscriptome246Y
F101406Metagenome / Metatranscriptome102Y

Sequences

Protein IDFamilyRBSSequence
Ga0207650_1000041018F016574AGGMLKTDVIDRIRHIFLHPRPHVSIMQATGLLGWSRREMTAAIEAGEVELWTTPVGKWFPRAEMMAKALEIWPMHVIEEALGEDADGILPQAIRSAELRVRLPRHHIDMLEYRAERQGTTVNGVLERELDGIASAHIEELSAALPGFAEAMAWPAA
Ga0207650_1000041028F101406GGCGGMTLLAWFGSWAWPGWPASFAIDLLGFADFADFPRYAKSAVVVLLIIINVGTWAAVIRAAMLLIRKSTSPTPP
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