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_10000260

Scaffold Ga0307507_10000260


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000260 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)103364
Total Scaffold Genes42 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)27 (64.29%)
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?
F000746Metagenome908Y
F005943Metagenome385Y
F015182Metagenome256Y
F020829Metagenome221Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000026020F015182GGCGGVIKVISDFFKKIFLVFSVVLSKDFSIFLEFNIELIK
Ga0307507_1000026022F005943GAGVLRNGGNGYKAYVFRESTRRCAIDRKGRGRKEVIYPRVADISYTRGLCESTGFSYGGPCGRVP
Ga0307507_1000026038F000746N/AMITTGLIKYMVAVVGNIEEGTINVNYKVTMEVLIEVYFKVIARRSAMFVRSQSAS
Ga0307507_1000026039F020829N/AMPLVSSKLITNIMFSIYGTPSTLGLYILIIYTGPLYIWIVITAISRLIACYNYKDRLIALLIIKHTRIAAFSSYRSWNP
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