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 Ga0116111_1004294

Scaffold Ga0116111_1004294


Overview

Basic Information
Taxon OID3300009616 Open in IMG/M
Scaffold IDGa0116111_1004294 Open in IMG/M
Source Dataset NamePeatland microbial communities from Minnesota, USA, analyzing carbon cycling and trace gas fluxes - June2015DPH_8_100
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)7424
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (75.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Wetlands → Unclassified → Peatland → Peatland Microbial Communities From Minnesota, Usa, Analyzing Carbon Cycling And Trace Gas Fluxes

Source Dataset Sampling Location
Location NameUSA: Minnesota
CoordinatesLat. (o)47.5028Long. (o)-93.4828Alt. (m)Depth (m)1 to 1.25
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F006757Metagenome / Metatranscriptome365Y
F013103Metagenome / Metatranscriptome274Y
F050089Metagenome145Y
F073812Metagenome120Y

Sequences

Protein IDFamilyRBSSequence
Ga0116111_10042941F013103N/AKGTKAVISVHFSAYGQRTFNNLRANFVGEIPRKEFFNTHRR*
Ga0116111_10042943F050089GGCGGMARQVFVFDAPPGREMCDFCSASPTARLYACRNFVVPRTKHAVFQHESIGAWAACDRCAVLIDAGHWSQLTDRAFRRFCKKHGVSRYEEFEVREQLREIHQFFKENLIKEA*
Ga0116111_10042944F073812GGAGMADPRQELESALSPLAWILNFIWDTFRLMFWFFMSPILIIAWCFHHPVEARLYIVSAIPLLWNGNWGTRGLLIFFVLLIASLFGKTMHKICWGIVRLALVAGLIWYIYMIFKLA*
Ga0116111_10042945F006757N/AMRDLAVLPPIKTTLRVALLSLSAYKEIPTEQLIEAARALPGGTKVHCPDRLTAIVLLLGTRLVELN*
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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