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 Ga0058859_11750066

Scaffold Ga0058859_11750066


Overview

Basic Information
Taxon OID3300004798 Open in IMG/M
Scaffold IDGa0058859_11750066 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere and bulk soil microbial communities from Kellogg Biological Station, Michigan, USA for expression studies - roots SR-2 (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3285
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Novel Protein Genes1 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (100.00%)
Associated Families1

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Human → Digestive System → Large Intestine → Fecal → Host-Associated → Switchgrass Rhizosphere And Bulk Soil Microbial Communities From Kellogg Biological Station, Michigan, Usa For Expression Studies

Source Dataset Sampling Location
Location NameKellogg Biological Station, Michigan, USA
CoordinatesLat. (o)42.3912Long. (o)-85.383786Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F081522Metagenome / Metatranscriptome114Y

Sequences

Protein IDFamilyRBSSequence
Ga0058859_117500663F081522AGGAGGMTPLLRMAALVVAALTVSASAFAPSSLTLASTAGDVNLDGSETRGTVPAGNLPLPAGSPTSITVTFNDVSPEQVVASDRYLGVGLTIETSLDDVVEGSLNAVPCDGTRSIKTASFTGPFLLRFPHGVTSVSLDAGDIGSSDSDVIMVKAYSDDALQTLIATDIGSLAQGAPTGCVRLSVQAPEPEVAVIKAVEITADGVYVFSSNSPSGVASYPNSNP*
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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