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_10000208

Scaffold Ga0307507_10000208


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000208 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)111118
Total Scaffold Genes62 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)34 (54.84%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (50.00%)
Associated Families6

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?
F000630Metagenome971Y
F000746Metagenome908Y
F002220Metagenome581Y
F006298Metagenome376Y
F088008Metagenome / Metatranscriptome109Y
F091119Metagenome107Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_100002082F088008GAGVLLHLIIKGLFRRNVIALNSLLIKIASFTVYNRANNSASILNVITVPCLFAL
Ga0307507_1000020854F002220AGGVHPLKSNSVIKLSFSFSFAIRFAFTNSSSLRAENWLSPKIIILLVYMPTILNRVPIVVIRKHRLNIKVVIKSFSLWCLL
Ga0307507_1000020857F091119N/AMSRDVGNGYRAYVFEESTRRYAIDRKDRGRRKVIYYA
Ga0307507_1000020858F000630GGAMLERCIGVKGTEANLGKRNLSRSMVNAIGGKHLRAPKRPNKGRKYNGNTFKNRNNRTKKLALLGRCPSR
Ga0307507_1000020860F006298N/AMERRLIIKNSNSLYAIYLTILSKVLVRGVVLNFHIYKELFNLINLTLKIFYTFVLNQEALKVGRSNLTISNISYTLTELVIYLFLLIKGVSS
Ga0307507_1000020861F000746N/AMITTGLIEYIVAIVGNIEEGTINVDYKATVEVLVEVYFKVIARRSAIFIRSQIAS
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Institute for Fundamental Biomedical Research
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