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 Ga0307508_10331949

Scaffold Ga0307508_10331949


Overview

Basic Information
Taxon OID3300031616 Open in IMG/M
Scaffold IDGa0307508_10331949 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 9_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1112
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (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)45.0822Long. (o)-123.061Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000814Metagenome880Y
F027698Metagenome193Y

Sequences

Protein IDFamilyRBSSequence
Ga0307508_103319491F000814GAGGVCRLKISASAIELGLEDDFWDARNSVFINGLSVMSILYAQKMSASDVELGF
Ga0307508_103319492F027698GAGGVCRLKISASAVELGLEDDFWDARNSVFINGLSVMSVLFAQKMSASDVELGFLDDFWVPGTSFSSTVSEAAVVCVD
Ga0307508_103319493F000814AGCAGVCRLKISASAVELGFEDDFWDGRDSVFINGLSVMSILFAQKMSASDVELGFLDDFWVPGT
Ga0307508_103319494F027698GAGGVCRLKISASALELGFEDDFWDGRESVFINGLSVMSILFAQNMSASNVELGFLDDFWVPGTSFSSTLYEAAVVCVD
Ga0307508_103319495F027698GAGGVCRLKISASALELGFEDDFWDGRDSVFINGLSVMSILFAQNMSASDVELGFVDDFWVPGTSFSSTVSEAAVVCVD
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