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_10000864

Scaffold Ga0307507_10000864


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000864 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)67287
Total Scaffold Genes20 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)12 (60.00%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (66.67%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Eukaryota(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
F002220Metagenome581Y
F003725Metagenome471Y
F037003Metagenome168Y
F044237Metagenome154Y
F078050Metagenome / Metatranscriptome116Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000086410F044237GAGLLTYKLKLLARIRIYLIQHIAILEPVYGNVKPPVYKADIYRGQEEDK
Ga0307507_1000086415F002220AGGVYLLKSNGVIKLSFFFGFAIRFAFTNSSSLRAKNWSSPKIIILLVYMPTILNRVPIVIIRKHRLNIKVVIKSFSL
Ga0307507_1000086416F000746AGTAGGMAEGIINNYKAKVEVLVEVYFKVITKRSTMFVRNQITS
Ga0307507_1000086417F037003AGGAMVEEKTKEYITKDKTTKETVKVKRNHLSILAMHHSRTIPLTERAYKDIL
Ga0307507_1000086418F078050N/AMVDIKERLNKEKQLEDLREKVRARRKDSDKIIVQLTH
Ga0307507_100008649F003725N/AMETLINLYIDLKETAKLVQERIKRYYNTKRSKGPDLKEGDKI

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