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_10000233

Scaffold Ga0307507_10000233


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000233 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)106630
Total Scaffold Genes62 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)31 (50.00%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (57.14%)
Associated Families7

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina(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?
F000247Metagenome1464Y
F002220Metagenome581Y
F009949Metagenome310Y
F014479Metagenome / Metatranscriptome262Y
F020829Metagenome221Y
F021494Metagenome218Y
F094694Metagenome105Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_100002331F009949N/AGKYLRALRGPNKGGKYNSNTLKDRNNRTKRLALLGKCSSR
Ga0307507_1000023349F014479N/AVGLEGFRLLSSSVVTVVEGVCVFLRVVGNRRYARVFELLAHLGVGARSAVLPRGLYYRNLLLLEGPSCLSATAFYKVFMEFPFRLSRDF
Ga0307507_1000023350F000247AGGVYTYIIYITLNCKCTLYTEVACTSYLTGSLNTFIGKTLVPNSNVLFTRLFMDGKLYYNGGLFLNESIDLTSTGL
Ga0307507_1000023353F021494AGGVSYIPTSASISESVIISSSSPGLTSRLYALYRSAANVRFAAFSLILNYPSLKLAIAVHRGLPIGRPLPYIPYNPYVPI
Ga0307507_1000023354F020829N/AMPLVSSKLITNIIFSIYGTPLTLGLYTLIIYTGPLYVWIIITAISRLTAYYNYKDRLTALLIIKHTYIAAFGLYRSWNP
Ga0307507_1000023355F094694AGGVVSVLLKVGLVCIVYEVLSKYIYLLALTYIVAIIDFIGQFKYQLFHLWRDKLLE
Ga0307507_1000023362F002220AGGMHLLNSNSVIKLSFSFSFTIRFTFISLSSLRAKNWSSPKIIVLLVCILVIPNRVPIVIIRKQGLNIEVVIRSFSL
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