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_10000028

Scaffold Ga0307507_10000028


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000028 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)199862
Total Scaffold Genes131 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)85 (64.89%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (50.00%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina(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: Oregon
CoordinatesLat. (o)44.5508Long. (o)-123.25Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000247Metagenome1464Y
F000746Metagenome908Y
F004663Metagenome428Y
F021494Metagenome218Y
F041034Metagenome160Y
F081096Metagenome114Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000002811F004663AGGAMGVLEESRLGNINKEESPKNKLPKGDLRGAIAELLRVVFLVGGEPVLLLPSSYRPY
Ga0307507_10000028124F000746N/AMVAVVGNIEEGIININYKVTVEVLVEVYFKVIARRSAIFIRS
Ga0307507_10000028129F021494N/AMELSISVFYVPTSLSKSEFIIASGSSLVLAGWLYAPYKPAVCIIFTALNLILDYPSLELAVAVYRGLPTGRPLSCVLYVPYIPIRSSNIARRCF
Ga0307507_10000028131F081096N/AMHIYRGGYRENTGQLDKDLIVKDTGQLIKGGDISLVSRRGESRLSSIRPSVSTAPLL
Ga0307507_1000002814F000247AGGVYTYTISVALSYKRIPRTEVAYTNYLASSLNIFIGKTPVPSSSALFAYPSIDRKPYYNSSLPLNKSIDLTSISL
Ga0307507_1000002827F041034GAGVWSSINFRFLVDVGGNLILVEFGGILGLVEFGGILRLVELGRLFRYRIDVSGNFKLVDPSRFFRS

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