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 Ga0307515_10000875

Scaffold Ga0307515_10000875


Overview

Basic Information
Taxon OID3300028794 Open in IMG/M
Scaffold IDGa0307515_10000875 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 17_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)69208
Total Scaffold Genes85 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)59 (69.41%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (66.67%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya(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: Washington
CoordinatesLat. (o)46.6992Long. (o)-120.899Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004778Metagenome423Y
F036505Metagenome169Y
F042672Metagenome157Y
F051592Metagenome143Y
F086388Metagenome / Metatranscriptome110Y
F088003Metagenome / Metatranscriptome109Y

Sequences

Protein IDFamilyRBSSequence
Ga0307515_1000087511F036505AGGAMGHVIQLALGAFMSTLGVKGRTKSWEAHERDQQFGENESTDIGKSQRLRKEGNARINKVSAMRPGLAKIIEKVRISTYFECAETDLHIADNACCIDYADTWSSKRVH
Ga0307515_1000087518F088003N/AMKAFVRTFREIEHHDVFSSGIFGDEFHDKGPRGWTKEPLNTLEEARVLYMVEVIAESSF
Ga0307515_1000087525F051592GAGVRLHEVENPLLDVVKHDDLHCMEEVTVREVAHDTGNMSKQIKSSVNMARREFGIGCLCVGIAERSI
Ga0307515_1000087540F086388N/AMETGDKTVERLEMPAVKEGNRTLEADNIDCCVSQIHCLCEWHVVNFYLVILNCHHRVVASQLGHEVEPYSLSAVEIRSSTCSVRQR
Ga0307515_1000087546F042672GGCGGMYRDPHGWADCVDRFIWVVKQTDKMHIVPGGAIVGPANLVRENNAASDRINSVWLVNNAVDFDTYWTVY
Ga0307515_1000087563F004778GGAGVVDHFKRTNGCVLGITTDNAWSNYSMTRGLHSTLEASAIKWPAWRNHIPCMEHVIQLAVGAFMSSLGLEGCAKSWEAHERDQQFGENESIDIGKRQRLRKEGNARINNLLAMKLGLAKIIEKVRIS
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