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 Ga0307512_10000819

Scaffold Ga0307512_10000819


Overview

Basic Information
Taxon OID3300030522 Open in IMG/M
Scaffold IDGa0307512_10000819 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 14_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)45854
Total Scaffold Genes62 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)41 (66.13%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (20.00%)
Associated Families5

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)45.6996Long. (o)-121.669Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004778Metagenome423Y
F008531Metagenome332Y
F026456Metagenome197Y
F048690Metagenome147Y
F092994Metagenome / Metatranscriptome106Y

Sequences

Protein IDFamilyRBSSequence
Ga0307512_100008191F004778N/AVHLKDVLDRFELTDGRWLGTTTANGPANYLMTRELQSTLEASGIEWPALRNHTPCMVHVIQLALGAFMSSRGVKGRTKSWEAHEHDQQFGENESIDIGKSQRLRKEGNARINKVSAMRPGLAKIIEKVLIS
Ga0307512_1000081922F048690GAGMLQVMDNMEASCIFYVKVGIFTPLEQSNMSLLTVNKSRIVTLTVQYDMIVSGILIYYSEDYLRQTSADILSLTLHPINI
Ga0307512_1000081935F008531N/AVTGELHSTHEASGIEWPEFRNCIPSMVHVIQLALGGFMSSLSVKGRTRSWEAHERDEQFADNESIDIGKSQRLRKEGNARISKLSAMRPGFTRIIEKERIS
Ga0307512_1000081936F026456N/AMWKRNTVTLHHVITVYNDMFDHMDGMMRDLAMMKIQWKEDLFFAVKLARQTLLKYYTEVTPTTGMLVIAAHILHPLRRLRSFRKWDKGMHINPENETSYTT
Ga0307512_1000081958F092994N/AMDLSAGKRRISAEERVKRFADGRCLYCGGCNHKAAECAARRKAQKFKAAGAEVKEVGTNESCEKSGTD
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