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 Ga0307514_10000109

Scaffold Ga0307514_10000109


Overview

Basic Information
Taxon OID3300031649 Open in IMG/M
Scaffold IDGa0307514_10000109 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 16_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)228392
Total Scaffold Genes237 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)152 (64.14%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → Pezizomycetes → Pezizales(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: Washington
CoordinatesLat. (o)46.6253Long. (o)-120.532Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004778Metagenome423Y
F051592Metagenome143Y
F063295Metagenome / Metatranscriptome129Y

Sequences

Protein IDFamilyRBSSequence
Ga0307514_10000109206F004778N/AVLDCFELTDSRLVGFPTDNAFSNYSMTCELQYTLEASGNEWPALKTHMPCMAHVIQLALGASMSSLRIKGHTKSWDSHECDQQFGENERMDFGKSQRLRKEGNATINKVSTMRPGLAKIIEKVCIS
Ga0307514_10000109216F063295N/AMGEPLTLNGCLLWQPQRLFKFKLQNEDGGLVEDWLALALRTIPENPGNLDPVLECILVRKTPAAVPLRVFSMGHMVSCAEVIPQIATSTKTGDGRTERWIDISHINEVTWNLC
Ga0307514_10000109226F051592GAGMHLHEVENPILKVVKYSDLNCMEEVGLEEVTHSTGTMSKHFESSLNMGPGEFGINCLRVGIAEHSI
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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