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_10259703

Scaffold Ga0307507_10259703


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10259703 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)1110
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families2

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)44.5508Long. (o)-123.25Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000814Metagenome880Y
F027698Metagenome193Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_102597032F027698GAGGVCRLKISASAVELGLEDDFWDARNSVFINGLSVMSIFFAQKMSASDVELGFLDDFWVPGTSFSSTVSEASVVCVD
Ga0307507_102597034F000814GAGGVCRLKISASAVERGLEDDFWDARNSVFINGLSVMSILFAQKMSASDVELGFLDNFWVQGHRFRQLFLRQQ
Ga0307507_102597035F000814GAGGVCRLKISASAVELGFEDDFWDGRDSVFINGLSVMSILFAQNMSASDVELGFLDDLWVRGT
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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