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_10000216

Scaffold Ga0307514_10000216


Overview

Basic Information
Taxon OID3300031649 Open in IMG/M
Scaffold IDGa0307514_10000216 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)158489
Total Scaffold Genes184 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)116 (63.04%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta(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
F010438Metagenome303Y
F062316Metagenome130Y
F092994Metagenome / Metatranscriptome106Y

Sequences

Protein IDFamilyRBSSequence
Ga0307514_10000216109F092994GGAMDVSAGRRRISAEKRAKRFPDGRWLYCGWFNHREAECPARKKAQTFKAAGAEIKQVGTREGSEESAKD
Ga0307514_10000216112F062316N/AMQKYNSNCTSQTNWFDLAGTPCLVFEHEPLNTFDSIKAILTVTFQEEPLEAYFWEQSTVPSPWNTNWTDTAREGGGLNINDPVFGPHSTGYSGAHSWFPCDPEEPCDCEGHNCAGTHSTVGHAAAAATTAKSLGIPLIVAVPPTPTPSELDGYNWHW
Ga0307514_10000216170F010438GGAGGMWNRCLFMSATDLEMVSYATQHIVKALPEVPYSQILEQCWNTAMQQNNIWSIAYEAYTKKILNEVY
Ga0307514_1000021637F004778N/AVLTDGCWLGITTDNATSNYLLTHELRSSLEVSFIEWPALWNHIPYTAHVIQLALGSFMSSLSVKGRTKSLVAHQHYEQFVENKSIDIWKCQRLRKEVNARINKVLANGPGLEKIIDKLCISRYFENSETELPIAENVCMSVYTDTW
Ga0307514_1000021675F092994N/AMHLSEGKRRISTEERVKRFADGRCLYCGGFNHRAAESSARKKAQTFKVAAAEMKEVGTKEGSDESGKDYVNPSRMQLWLMEKVLF
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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