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 Ga0207684_10000895

Scaffold Ga0207684_10000895


Overview

Basic Information
Taxon OID3300025910 Open in IMG/M
Scaffold IDGa0207684_10000895 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)33890
Total Scaffold Genes43 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)37 (86.05%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004246Metagenome / Metatranscriptome447Y
F025539Metagenome / Metatranscriptome201Y
F095814Metagenome / Metatranscriptome105Y

Sequences

Protein IDFamilyRBSSequence
Ga0207684_1000089512F025539GGAGGVSSNVDTALSKSDWHLDLVHDLPSQSLPGDPNIDDPVNDTGLRPQCGDLQVSVS
Ga0207684_1000089516F095814GGAGGMRIIESMVELLFGLCLSALILLIPFCIVGSIVAALRAVNRESDGEREKVKEIFASGAKVTALDDRMIETGVIVMTNPETHYGL
Ga0207684_1000089521F004246GAGGMLEEWDERDEVVAAGSICPVPDCGSLVISYRPPNRAGRDNARSWCEFACTRCGTDFTVAEDELMFQSVPKEWLLGRVQAA
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