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 Ga0307507_10001439

Scaffold Ga0307507_10001439


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10001439 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 7_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)53272
Total Scaffold Genes26 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)18 (69.23%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Roots → Unclassified → Unclassified → Ectomycorrhiza → Soil And Ectomycorrhiza Microbial Communities From Populus Trichocarpa Stands In Riparian Zones In The Pacific Northwest, United States

Source Dataset Sampling Location
Location NameUSA: Oregon
CoordinatesLat. (o)44.5508Long. (o)-123.25Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000247Metagenome1464Y
F014479Metagenome / Metatranscriptome262Y
F015182Metagenome256Y
F041034Metagenome160Y
F054477Metagenome139Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_100014391F000247AGGVYTYVIHIALNYKRTLHMEVARTNYLASSLNIFISITLVPSSSVPFTYPFIDRKLYYSSGLSLNKSIDLTSTGL
Ga0307507_1000143921F054477N/AVSTSLGVKARANKLNSPGINWRCRLSIGIRLFFRFNIVASNKYRLTIIGSLKV
Ga0307507_1000143922F015182N/AMAGGCVAKVISNFFKEIFLVFNIILGKGSSTFLEFNIELIK
Ga0307507_100014393F014479N/AVGLEGFQLLSSGVTSIIEGVCIFLSGNYRCVRVFKLLAHLDIRAYLAILPRGLYYCNLLLLEGPSCLNATAFYKVFMEFPFRLSRDFKGEW
Ga0307507_100014397F041034AGGVEVSGSLILVEFSRILRLVELGGLFRYRVDIGGNFRLVDSGGFFRFWFMA
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Institute for Fundamental Biomedical Research
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