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 Ga0268264_10081237

Scaffold Ga0268264_10081237


Overview

Basic Information
Taxon OID3300028381 Open in IMG/M
Scaffold IDGa0268264_10081237 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS Switchgrass S3-2 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2770
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (60.00%)
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 → Rhizoplane → Epiphytes → 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?
F006246Metagenome / Metatranscriptome378Y
F087582Metagenome110Y

Sequences

Protein IDFamilyRBSSequence
Ga0268264_100812372F006246AGGTGGMSTLAARPAPMISLQELYRQYTCLAPKPGEPVPLSAFKMSHAETEKVFSIFDEDYHISRFFHFHNEHGDKYSINGEMATHVVIDPEIRLVL
Ga0268264_100812374F087582GGAMLLAAQITGGLDHRLALILYLLLLLAAASPVVIAWLRVLPAEREPFAAPGEKPQKEERDAFAIFLLANISLSLLLRIPGVDSAALAGHAAKWFPAEWANHVVMVGFIWFGFIPGLAAAYALIRANPVRWPLVIGGILTLGLWLAAPFLIAAIRGAE

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