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 Ga0070696_100038804

Scaffold Ga0070696_100038804


Overview

Basic Information
Taxon OID3300005546 Open in IMG/M
Scaffold IDGa0070696_100038804 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K1-25-3 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3288
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (80.00%)
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?
F003654Metagenome / Metatranscriptome475Y
F004038Metagenome / Metatranscriptome456Y
F012371Metagenome / Metatranscriptome281Y

Sequences

Protein IDFamilyRBSSequence
Ga0070696_1000388041F012371AGGTGGMQPGHGPVWRPLKRHDSHVAEQMVERAAELARDSHSQTRYAAVLVKDESLLAWGTNGVP
Ga0070696_1000388043F003654GGAGGLAEVPFQHVARRFAELVCPPEVRAGQRADRVLGELGLMLGSLPPVARKALAAALVLLDQGARLYPPSRGRRFARLGDEVAGPYVRAVLARRGPAAELIRRLKSVITMCYYELPEVQREIGYNPAPYIAAVSRRRLESYGPDIRAGEAAVTTAPRQGAPGQGTPGQGTPERGTP*
Ga0070696_1000388045F004038N/ATQDSAWLAARAPVCAAAFNTGGTIDGISAAACLLDESSARLAAVRGIVPPEARLKGTDSTDPNQLSWYTTPEGSRIAEISTQGDQTGGAVVAWVIVGGANGFVVNPRQFYFQDGSFTDPGVPEPSTPSYYRVPAGKKFEFDIDYSKLAKDPNADKSAAGYLYAPGKPVAVWA*
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