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_10000213

Scaffold Ga0307507_10000213


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000213 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)110384
Total Scaffold Genes29 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)17 (58.62%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

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
F003457Metagenome485Y
F004318Metagenome / Metatranscriptome443Y
F025697Metagenome200Y
F056213Metagenome137Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000021319F004318AGTAGMSKVLSELRLFLVSYIVSCLGLGSVLVIELVLDLGLGSLSILFIVEYQFF
Ga0307507_1000021321F056213N/AVDFGIRRSILLYRLLMTFTQALRAPGRSISIREVFSLGLKDLIRLLTSIESFQPVSFT
Ga0307507_1000021323F003457AGCAGGVCFFSAKAFLISAIITAKIVYLGFLASYANGVALIMWISKVLSELGLSLVSYIISYSGLSLVLGIELVLDSGSGSLSILFIVEY
Ga0307507_1000021324F000247AGGLIQTNTINIALSYKRTPYIEVAHTNYLTSSLNTFIGKTLVPNFGVLFTRPSINRKLYYNSSLFLNGSIDLISTGL
Ga0307507_1000021328F025697AGGCGGVDGKETDGKVVHGKDIGNGKVGSEKVHGFLADFALSIFLLSTKSYKERFSIYFLKLYWL
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