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_10000126

Scaffold Ga0307507_10000126


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000126 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)130613
Total Scaffold Genes47 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)31 (65.96%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
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?
F002555Metagenome548Y
F002793Metagenome529Y
F009949Metagenome310Y
F032886Metagenome178Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000012612F002793N/AMDIIPLVDDLEILGIFKDKDKGEGNSVTDALSTIL
Ga0307507_100001262F009949AGGMGGKYLRALRGPNKGRKYNSNTLKDRNNRTKRLALLGRCPNR
Ga0307507_100001264F032886AGTAGMELEYLLINSDKEEKGTNQEYLNLNNVIEVETETTIKRGLVTGIVILLDIISITSQGGRSNI
Ga0307507_100001268F002555AGTAGMLEIFKDEDKEEGDGITDSLSTILRLLREELEEASWLI

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