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 Ga0307509_10013688

Scaffold Ga0307509_10013688


Overview

Basic Information
Taxon OID3300031507 Open in IMG/M
Scaffold IDGa0307509_10013688 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 10_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)9585
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (66.67%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (66.67%)
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: Washington
CoordinatesLat. (o)46.0356Long. (o)-122.86Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000814Metagenome880Y
F027698Metagenome193Y

Sequences

Protein IDFamilyRBSSequence
Ga0307509_1001368812F027698AGCAGVCRLKISASPVELGFEDDFWYNRDSVFINGLSVRSILFALKMSASDVELGFLDDFWVLGTNFSSTVSEATVVYVH
Ga0307509_100136882F000814AGTAGVKISASVVELVFEDDFWDSRDSVFIKGLSVRCSLFTQKMSASAVELGLLDDFLGPGVLVFVTGF
Ga0307509_100136884F000814N/AVKISESAVELVFEDDFWDSRDSVFIKGLSVRCSLFTQKMSASAVELGFLDDFLGPGVLVFVTGF
Ga0307509_100136885F000814N/AMKISVSSIELGFEDDFWDSRDSVFINGLSIRSSLFKQKMSASAVELGFLNDFLGPSVLVFVNGF
Ga0307509_100136888F027698GAGGVCRLKISVSAVELGFEDDFWDSRDSVFINGLSIRSSLFAQKMSTSAVELGFLDDFWVLGTYFSSTISEAAVVFVD
Ga0307509_100136889F000814GAGGMCRLKISGSAVEMGYEYDFWDSRDSLFIHGLSIRSSLFAQKMSTSAVELGFLDDFWVPRT
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