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 Ga0207653_10000040

Scaffold Ga0207653_10000040


Overview

Basic Information
Taxon OID3300025885 Open in IMG/M
Scaffold IDGa0207653_10000040 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-25-1 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)97615
Total Scaffold Genes98 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)64 (65.31%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
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)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002285Metagenome / Metatranscriptome574Y
F005486Metagenome / Metatranscriptome399Y
F012956Metagenome / Metatranscriptome275Y

Sequences

Protein IDFamilyRBSSequence
Ga0207653_1000004013F005486AGGAGGMRRVRLISLLLCCAPFALSAQQPTTPHDSVRGAIRTVDVHARTLEVTTGVGYALRVVRLQVPAGVPITDRQSAQPQLIGLAALQPGDVIRAAFGGRPTGFVAYTIERVGRMDQP
Ga0207653_1000004069F002285N/AMTLLLGFLLVMQAPRPFAYRGFAPGMSYRDFSAQARALAPTKDDILACQTMRQSAQVMDCGVRMRDPVDSARFYLSANVIEGRTSVISFVDSGNVSLVRRAQDDLRKRLGLPQRRERSMWEWTKGRRFIRLNWRGGRGWRVISITLNDRDVMDRIARYLPKPKPK
Ga0207653_1000004080F012956GGAGGMSRRIRFALALVLVSFALSAAACADASGPSSNVCDNNNPVTCH
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