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_10001392

Scaffold Ga0307507_10001392


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10001392 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)54238
Total Scaffold Genes17 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)14 (82.35%)
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
F014479Metagenome / Metatranscriptome262Y
F067281Metagenome125Y
F080892Metagenome114Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_100013921F067281AGGMHMLGICCIYTSSRFNSHSIKLVTLRLHNYSFLEKTIRRVEKHFIKRLNVAVLDTASTPIRISSAYALYIIGLSLNPLTTFKSVAVVYTRR
Ga0307507_1000139216F080892AGAAGMPVVNIIEDLLLLAVSTYIDLLDVEIPVINIIEDLLLLAVSTYGDPLVPAQIALT
Ga0307507_100013928F002555GGAVDDLEILGIFKDEDKEEGDGITDALSTILRLLREESEEAS
Ga0307507_100013929F014479N/AVGLKGFWLLFSSIITVIEGVCVFLSVASNCRYIRVFKLLVHLSVRACSAVLPRGLYYYNLLLLEGPSYLSATAFYKVFVEFPFRLL
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