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_10001165

Scaffold Ga0307512_10001165


Overview

Basic Information
Taxon OID3300030522 Open in IMG/M
Scaffold IDGa0307512_10001165 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)38257
Total Scaffold Genes53 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)23 (43.40%)
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 → Pyronemataceae → Sphaerosporella → Sphaerosporella brunnea(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?
F004891Metagenome / Metatranscriptome419Y
F016905Metagenome / Metatranscriptome243Y
F080709Metagenome / Metatranscriptome114Y

Sequences

Protein IDFamilyRBSSequence
Ga0307512_1000116513F016905N/AMPGHQYTQAEFALQKVVKSFGNLLSELAEHRVTHTYAVVFRFCQYENIDYLVLRYLNTGALPFEEFSEEWLFDGET
Ga0307512_1000116520F004891GGAMIVRASRLGMRVGRFSRRLRGVGVPATPDAGLDTMLRIEATCKVPPGVGVLPLLVDGVAVGVFIDCHSVADGLDDTH
Ga0307512_1000116548F080709N/AMVELTTRKREIRGDGGNHHEKLGLKRISCASQLTIPDTADTSPDPARYNTDTRSSEPNQASHTRDFS

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