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_10002255

Scaffold Ga0307507_10002255


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10002255 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)41101
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (55.56%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → dothideomyceta → Dothideomycetes(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
F004318Metagenome / Metatranscriptome443Y
F014479Metagenome / Metatranscriptome262Y
F102221Metagenome101Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_100022552F004318GGAVLSKFRLSLVSYLVLSLILGIELVLDLSLGSLNILFIVEY
Ga0307507_100022553F014479N/AVWLEGFWLLSSSIITVVEGVYIFLSVTSNCRCAKVFKLLVHLGIRAYSAVLPRGLYYCNLLLLEGPSCLNATAIHKVFVEFPFRLL
Ga0307507_100022554F102221AGTAGVLKVVSPLFKAVNYSKQFLIMGIIPNFRSLEFSAIEYYRSLVELGSV
Ga0307507_100022555F000247AGGVQTNIIYIVLSYKRTPRTEVARINCLAGSLNTFTDITPVPSSGIPFAYLSIDRKLYYNSGLSLNKSIDLTSTGL

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