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 Ga0307512_10000311

Scaffold Ga0307512_10000311


Overview

Basic Information
Taxon OID3300030522 Open in IMG/M
Scaffold IDGa0307512_10000311 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 14_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)70211
Total Scaffold Genes94 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)60 (63.83%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
Not Available(Source: )

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)45.6996Long. (o)-121.669Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004891Metagenome / Metatranscriptome419Y
F006048Metagenome382Y
F036505Metagenome169Y
F051592Metagenome143Y

Sequences

Protein IDFamilyRBSSequence
Ga0307512_1000031114F004891GGAMIAQASGLEIRVGRVSGLLRGVGVIAMPDAGPDATRRIEVPPGAGVLQLRVPGSAVRESIDRRCVADGVKVTC
Ga0307512_1000031115F006048AGGAMLKQQHTWNITCSNWYQVRAQVDKLKSHYKQSAWDNTAECYDLHRFESSAEHLEFVDSLLADIKYLFPVAEHVEGGVRGPNPTQRESKAPNKWPASTLLPGGSNPAVHLHYILSLGEYPG
Ga0307512_100003116F051592GAGMHLHEVENPLLEVVKRAEWHCMEEVGLREVAHDTGIMSKLIEFSVNMVQQEFRIGCLGVGIAERWI
Ga0307512_1000031172F036505N/AMTQELQSTLGASGIHQHVMRIHLPCMAHISKLALGAVMSSVGENGCTKSWEAHERNQQFGENECTDIGNSQRLRNEGNARINKVSVMRPDLAKIIEKVSISRHFGRPETDLHIADNACCIDNADAWSSKRV

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