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 Ga0070716_100000002

Scaffold Ga0070716_100000002


Overview

Basic Information
Taxon OID3300006173 Open in IMG/M
Scaffold IDGa0070716_100000002 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - LAR L11-2 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)396037
Total Scaffold Genes371 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)252 (67.92%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Agricultural Soil → Corn, Switchgrass And 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)42.4774Long. (o)-85.451Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F016445Metagenome247Y
F092638Metagenome107Y
F103807Metagenome101Y

Sequences

Protein IDFamilyRBSSequence
Ga0070716_100000002153F103807AGGAGMSYKKSGKQVLSAAIGVISIATVAIWQFYLFVTFKNAEGVVDVQGGTYHLWWAVGLALIACIGSFLFFSVFLRYDRNDEMHITSLPS*
Ga0070716_100000002318F092638GAGMIEEAIDEKELAFLSQLEQHENEWVAFIEKDGAEIVVGSGKDAVEAIEDAEKRGFRNAILMKVPPFDRGLIPTNFS*
Ga0070716_10000000263F016445GGAMSLTSKKTRITARRVAEIIGCSEKTVYNRGAGTDKLTRIRNGRRQIRFILEEVLAFTESQEKEAQRSHSTRDN*
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