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_10000482

Scaffold Ga0307514_10000482


Overview

Basic Information
Taxon OID3300031649 Open in IMG/M
Scaffold IDGa0307514_10000482 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)82093
Total Scaffold Genes108 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)67 (62.04%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

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: 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
F060560Metagenome132Y
F081959Metagenome113Y

Sequences

Protein IDFamilyRBSSequence
Ga0307514_100004821F019765GAGMLQEMDNMEASCVFYVKVSTFTHLAQSKTTLLTVNQSGMVRLIVRH
Ga0307514_100004826F004778N/AVLDHFELTDSHLLGITTDNTSSNYLMTRELQSTLEASEIKWPALRNHIPCMAHVIQLALGAFMSSLGVQGRTKSWEAHERDQQFGENESIDIGKSQRLRKEGNARINKVSAMKPGLAKIIEKVRIS
Ga0307514_1000048274F081959GGAMLTGVWARMATMGMRSKRHRKPMMDQHRMWKTAGIVLESAKIGLYISDR
Ga0307514_1000048276F060560N/AVAKNNGVHPKASKSKLEADRPDRSNYINCKNDGGKIVCCCAVTGRKILITPGFADTYILLRNTWNTQPESYQQRVYTNNLRTVKRHIHQAENVTPAVVISVEAARIDNAIHLEYFTSEVALEEPEIGSTDPNIPIDNNCADDKLDFGMAGGEGDFENEGDERDAIPTASRR
Ga0307514_1000048277F004891GGAMFARTSGLEMGVGKFSTPLRAMGVLVMPDRGLDTTRRVESVCVILLGAGVLRLVVPDMVVGVIIDCRCVADGVEVTR
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