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_10000566

Scaffold Ga0307514_10000566


Overview

Basic Information
Taxon OID3300031649 Open in IMG/M
Scaffold IDGa0307514_10000566 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)70187
Total Scaffold Genes98 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)69 (70.41%)
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: Washington
CoordinatesLat. (o)46.6253Long. (o)-120.532Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004778Metagenome423Y
F004891Metagenome / Metatranscriptome419Y
F019765Metagenome227Y
F042672Metagenome157Y
F081952Metagenome / Metatranscriptome113Y
F081959Metagenome113Y
F086388Metagenome / Metatranscriptome110Y

Sequences

Protein IDFamilyRBSSequence
Ga0307514_1000056619F004891GGAGMITRPSELGIWVGRFSRPLRGVGVIAMPNVGLDTTRRVEVPPGAGVLRLLVTGMAVEIFIDRRCVADRVEVTH
Ga0307514_1000056624F081959GAGGVMLTGMSATMGMRMRRNKPRKPMMDQSRMWRSEGIVLESVKIGQYISDM
Ga0307514_100005663F019765GAGMLQVMDNMEASCVIYVKVGTFTPLEQSTIFLTTVNKPGIVMLTIQYDMIVNVIFR
Ga0307514_1000056642F081952AGGMVNAPKQNLSPHPEGKYGTLTNPSTRQCHQANKGKRGLKAERVRALKALRTLRSKKNLAVEKRQEMHLLSNEEREIWIEDHAEQETAVASK
Ga0307514_1000056646F086388N/AMETGDKTADRLEMAAVKEGNRTLAADDIDWCVSQTDYLCEWHVMNIYPLILNCHHQVVASQIGHQVEPYSLSSVEILSSICTVKQRYW
Ga0307514_1000056655F042672N/AVVIPTNYKDHHGWADFVDRFIRVVKQTNNMHIVPIGAIVGPVHLVQENAALGGMDSVWLVNNHVDLDTYWTVY
Ga0307514_100005666F004778N/AVLAHYELADGRLLGITTDNALANYSMTRELQLTLEVSGMEWPALRNHILCMTHVIRLPLGAFMSRLGVKGRTKSWEAHERDQQFGQNEWIDIRKSQRLRKEGNARINKVLAMGPGIAKIIEKVHIS
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