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 Ga0207646_10000648

Scaffold Ga0207646_10000648


Overview

Basic Information
Taxon OID3300025922 Open in IMG/M
Scaffold IDGa0207646_10000648 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-2 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)45068
Total Scaffold Genes47 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)33 (70.21%)
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?
F012170Metagenome / Metatranscriptome283Y
F034723Metagenome / Metatranscriptome174N
F084805Metagenome / Metatranscriptome112Y

Sequences

Protein IDFamilyRBSSequence
Ga0207646_1000064825F084805AGGAGMSTSENRRWALSGPVAVGLWVVGIILINRNGPAEHATGSQILAWYKSDSDSITLGTWLFMLGCLGFVTFVGGLRVRLTEAAGRASQLPMLALVGAGMAAVCGMLTAAVDLAGGIDKNDINPSIAAVFHHSVDIFFVGAELAAVLPLAAVAIVAWRTRILPRWWAAFAALVAVVLVVGPIGWLGLIFGVPLWTLGTSLLVLPALARAHADGCNRLRSRDGRRVPGAARFPSR
Ga0207646_1000064834F034723AGGAGMVAMVLNLEVEDYDEWKKLFDSDPGGRRGIATGHTVSRNVENPNDVFIRTEYRSVEDAKKVRQQLLDSGALNSSTVKTPPTIIEIADQVTY
Ga0207646_100006489F012170N/AMTTRTPLRDEKRDHVEPSSGLLHRAEEWAEEWAEETGLAPEGEPREGVPWHAVVLVTAGLVLLVVLEITLAFGVAKLVTGHAY
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