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_10000087

Scaffold Ga0307507_10000087


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000087 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)143913
Total Scaffold Genes66 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)40 (60.61%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → dothideomyceta → Dothideomycetes(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
F002793Metagenome529Y
F021494Metagenome218Y
F053802Metagenome140Y
F061416Metagenome131Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000008715F021494GAGMSYVSTSLFKSKSVIASSSSPVLAGWLYAPYKPAIYVIFAALNLILNYPSLKLAVAVYRGLPTRRPLPYILYVPYVPIQSGNITQRHF
Ga0307507_1000008750F000247AGGVQTDITYVILSYKRTLRTEVARTNCLASSLNIFVDITLVSSSSVPFAHLSADRKPYYNSSLSLNKSIDLTSTGL
Ga0307507_1000008755F053802N/AVLVDSRVIRNYILLAAVKRIRLLYRQKEYLYLLITILGDLIAYRGGIINIKTGPI
Ga0307507_1000008762F002793N/AMDITPLVDDLEMLGIFKDKDKEEGDSITDALSIIL
Ga0307507_100000877F061416AGGMHFKVMQEGVKLATLVDQVAYVELFLTRRVLKWVKPYLTKIQVNGITTTNQEVRFIFIS
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Institute for Fundamental Biomedical Research
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