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 Ga0307514_10000050

Scaffold Ga0307514_10000050


Overview

Basic Information
Taxon OID3300031649 Open in IMG/M
Scaffold IDGa0307514_10000050 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 16_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)325319
Total Scaffold Genes417 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)264 (63.31%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (50.00%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → Pezizomycetes → Pezizales(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: Washington
CoordinatesLat. (o)46.6253Long. (o)-120.532Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F010438Metagenome303Y
F042672Metagenome157Y
F060560Metagenome132Y
F063295Metagenome / Metatranscriptome129Y
F079413Metagenome / Metatranscriptome115Y
F086388Metagenome / Metatranscriptome110Y

Sequences

Protein IDFamilyRBSSequence
Ga0307514_10000050336F079413AGGLADAAHQTIVRSYRLNLGSETELRIQVKELLFDVAYRLKVIDNKKAWFTQMEVLDLIYHQFCFTANRLGRQLTTSQFFQPLTPPMLALVAAAIHCAPSEYAT
Ga0307514_10000050349F063295GGAVGKQHPGRCYGVLNGHLGWQPQRLFKIKLQNEDGAFVEYWLSLVLTTIPQNSGNLDPVTKFVQVRTTPVAVNLQVFSGGSIVSYAHVIPEIATRSKTADGQKERWIVNSHIDLVTWNDVY
Ga0307514_10000050368F086388N/AMENADKTAKHLQMAAVKKSNRTLAADDIDCCVSQIDCLCEWHVVNIYLEILNCRHRVVASQIGHQVEPYSLSLVEILSSTCSDKPR
Ga0307514_10000050382F010438GGAGMWNRWPFMSASDLEMVSYATRRVAKALAEAPHLQIIVTYWNTAMQQSNIWSIAFEAGTKEILKEVR
Ga0307514_10000050383F060560N/AMIDDKDGQISSPLIMFRCTALRHAPLEWQKNKGVHPKASKSKLKADRPDRSNYFNYKNESGKIASCCTVMGRKLLTLPGVAHTYTFLMNTWNTLPESYQQRVYKNTLATVKRQIQQAENPTPAVVISVEAACVDNAIVLDYLTSEVELDEPEIGSTDLNIPIDNDCMDDELHFGMRGDSG
Ga0307514_10000050396F042672N/AVVVIPTKFKDLHSWADCVDGFIQVVQQTNKIHIVSVGTRVGPAHLVQKNAASGGIDSVWLVDNHVDLDTYWTVD
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