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_10001938

Scaffold Ga0307507_10001938


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10001938 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)44983
Total Scaffold Genes14 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)11 (78.57%)
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(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?
F004318Metagenome / Metatranscriptome443Y
F013992Metagenome266Y
F056213Metagenome137Y
F091119Metagenome107Y
F096933Metagenome104Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000193812F091119N/AMLRDVGNGYRAYIFEESIRRCAIDRKDQGRRKVIYYAWLT
Ga0307507_1000193814F096933AGTAGVTKTIGDLFKEVFLVFSIILGEDSSVFLELNIELIK
Ga0307507_100019382F004318N/AVLSKLRLFLVSYIVSYLDLDLVLSTELVLDLGSGSLSILFIVEY
Ga0307507_100019383F056213AGGMSLYHLLITFTQALRAPSRSIPIREVFSLGLKDLIRLLTSMESFQPISFT
Ga0307507_100019387F013992GGAMVVVIVLYVAVNIYNYSRPVVAVANNPMGLIFSRVGCRDLGMCFSNKLSP
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