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 Ga0207645_10007624

Scaffold Ga0207645_10007624


Overview

Basic Information
Taxon OID3300025907 Open in IMG/M
Scaffold IDGa0207645_10007624 Open in IMG/M
Source Dataset NameMiscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS M5-3 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)7626
Total Scaffold Genes13 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)12 (92.31%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Soil → Unclassified → Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameUSA: Michigan, Kellogg Biological Station
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F017708Metagenome239Y
F023183Metagenome / Metatranscriptome211Y
F045318Metagenome153Y
F062069Metagenome / Metatranscriptome131Y

Sequences

Protein IDFamilyRBSSequence
Ga0207645_1000762410F062069GGAGMEDGTSMRVRIDEEGYTYITVTQWDEDGREIVYREDEHSQFSAPQF
Ga0207645_1000762411F045318N/AVIGAYCCCASAFAQTSDSRTAEEPTKSWTATTDLKSDDLGPQHIPLRIIESHSQSGNRTLDKRSVEIRRNDGRFEPYQDIEKEILTVDAFTVRSTMRTFARDVNGSKALVQLTEEDKHILPGDDSNIVRMTYNEDVSGRLQPVQREMVETKKIGKNLEETNTTVMLPSVNGVLAPVSQTHELRKRAANDTIVIEKTTWLTDVNGKWQVSEVRQATTTEGQTDRTIEEHVSRIDSEG
Ga0207645_1000762412F023183GAGGMDVPGTTRDGSPHLVERKTSVESSNLTGVRANQQRIEQTSPGDPGSGVSACLWLVDGRVVPGPAGEQSTVTIRARDSNGNVGIVAVNTKSDRIPTIQVQRTPSEKP
Ga0207645_100076245F017708AGGAGMAKVIEFYIPKNFRKTFRTVAPPQLGKIIEFCQQTKRSA
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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