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_10001548

Scaffold Ga0307507_10001548


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10001548 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)51249
Total Scaffold Genes16 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (50.00%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (33.33%)
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
F004318Metagenome / Metatranscriptome443Y
F006298Metagenome376Y
F056213Metagenome137Y
F078050Metagenome / Metatranscriptome116Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_100015481F000630GGAGMGVKGIEANLGKRNPSYGIVNAIGGKYLRAPKRPNKGKKYNSNTLKNRDNRTKRLALLGRCSSR
Ga0307507_1000154811F004318AGTAGMSKVLSELRSSLVSYIVFYLGLGSVLVTELVLDLGLGSLSILFIVEYQFF
Ga0307507_1000154812F056213N/AVDFSVRRSISLYHLLITFAQALRAPGRSTPIREVFSLGLRDLTRLLTSAESFQPVSFA
Ga0307507_1000154814F000746N/AMITTGLIEHMVAVVGNIKEGTINVNYKATMEVLMEVYFKVIARRSAIFVRSQSAG
Ga0307507_1000154815F006298N/AMEHRLVIKNSNSLYTIYLTILSKVLVRRVVLNFYIYKELFNLINLTLKVFYAFILNQEALEVGHSDLTISNVFCTLTELIIYLFSLIKGVSS
Ga0307507_100015484F078050N/AMIGMVDIKEQLDKEKQLEDLRDGIRVRQKDLDKITV
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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