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_10000850

Scaffold Ga0307507_10000850


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000850 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)67904
Total Scaffold Genes21 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (28.57%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (42.86%)
Associated Families4

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?
F000746Metagenome908Y
F006298Metagenome376Y
F019457Metagenome229Y
F078226Metagenome116Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_100008501F019457GGAMQTNNTIILGDDQFLALKEDKLVKVNFIVKLKEKLNLITLLLFNRCILSLNKDSIALC
Ga0307507_1000085015F006298N/AMEHRLVIKDSDSLYAIYLTILSKVLVGRVVLNFYIYKELFSLINLTLKIFFAFILNQEALEVGYSNLIISNISCALAKLIIYLLLSIKRVPS
Ga0307507_1000085021F078226GAGVLDIDANKNTNNNNSEEELEDPNGYYLILFGTLTIDEATSISVELANKACAYLFTVTSMEPTTETDPFNYNITTAALCYTSTVFIGIMIDTSALKKSMAGYG
Ga0307507_100008503F000746N/AMVAGVSNIVEGTINDYKAKVEVLIEVYFKVIARRSAMFVRNQIIS
Ga0307507_100008505F000746N/AMAAIVGNIAKGTINVDYKVIMEVLIEVHFKVITRRSAIFIKSQIAS
Ga0307507_100008506F006298N/AMERRLIIKNSNSLYTIYLTILSEVLVRGVVLNFYIYKELFDLINLTLKIFYAFILNQEALEVGRSNLIIFDVSCTLTELVIYLFLLIKGVSS
Ga0307507_100008508F019457GGAMQTNNIIILGNNQFSALKENELIKANLIAKLKEKLNLTIPLLFNRCTLSLNKDSIALR
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
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