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 Ga0070710_10006862

Scaffold Ga0070710_10006862


Overview

Basic Information
Taxon OID3300005437 Open in IMG/M
Scaffold IDGa0070710_10006862 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - LAR L5-2 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5494
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (100.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

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?
F001920Metagenome / Metatranscriptome617Y
F002886Metagenome / Metatranscriptome523Y

Sequences

Protein IDFamilyRBSSequence
Ga0070710_100068623F001920GGAGMSDSKPGDSVVLNWRGPLLAAGIFAAVFSILLLMAHQNESKTSDMGSSLREDPYGASLLFDSFGRAGYQVKRGQDQDSLSDQDASRTTAFFIGGYSVNDWITKDGKLQNGTKFRGRLEDFLARGGRVVLVEPRGELKSQSQGWEVEIKWDQTAKEHSPPSVSPNPGAMPADSEMMYLAANGPWLQTDAEWTVLYGGAVEANTQADTQARIYMAMRRAGNGVLIAASQESFLLNEAIKMHPNPVLLDFLAGARPVIWVDETLHGLHQDEGVLWLVQRYRLQAALLLFWATLLALLWSMSGDLVRRPAHNSSAQIVRHGEAAGVAARRLLQRSIVKERVVAECWEQFRRSWPQDAQAISADPLLGARLRTALEQPPLAGYKELSELIAERRASAKGLAHVNRDAPENSKLNR*
Ga0070710_100068626F002886GGAGGLKSAFRKISRVSSITGATKWYLSKDCLLAAKRTMYVIEYRRFFLRDLESIVVWPSRLWRWRLIVPGVLFAALSASLWQWANSTSAEIFTGIGLAWVLLELALGPTARSRVCTTGVSVDLPLVKRTRRAREVLKAIDAAVRASRDVTMPPAVLIPSLQSAGASVQTNSEAASAAPSIADASQTNGF*
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