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_10001378

Scaffold Ga0307507_10001378


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10001378 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)54515
Total Scaffold Genes19 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)10 (52.63%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta(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?
F002220Metagenome581Y
F002793Metagenome529Y
F006298Metagenome376Y
F035578Metagenome171Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_100013781F035578GGAMVARVGDTAEGIINVDYKAIIEVLIEVYLKIINRRNAIFIRSQITS
Ga0307507_1000137818F002793N/AMDITPLVDNLEMLEIFKDKDKEEGDSVTDSLSIIL
Ga0307507_100013782F006298N/AMERRLVIKDNNSLYAIYLTILSKVLIRRVVLNFYIYKELFGLINLTLKIFFAFILNQEALEVGYNNLTISNVLCALAKLIIYLLLSIKRVPS
Ga0307507_100013784F002220AGGMHPLKSNSIIKLSFSFNFAIRFAFTSSSSLRAKNWSSPKIIILLVYIPTILNRVSVVVIRKQGLNIKVVIKSFSL
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