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 Ga0209234_1001857

Scaffold Ga0209234_1001857


Overview

Basic Information
Taxon OID3300026295 Open in IMG/M
Scaffold IDGa0209234_1001857 Open in IMG/M
Source Dataset NameGrasslands soil microbial communities from the Angelo Coastal Reserve, California, USA - Sample 08_20_2013_1_20cm (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)8036
Total Scaffold Genes14 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)11 (78.57%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Grasslands → Grasslands Soil → Grasslands Soil Microbial Communities From The Angelo Coastal Reserve, California, Usa

Source Dataset Sampling Location
Location NameAngelo Coastal Reserve, California, USA
CoordinatesLat. (o)39.718176Long. (o)-123.652732Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001980Metagenome / Metatranscriptome608Y
F047614Metagenome / Metatranscriptome149Y

Sequences

Protein IDFamilyRBSSequence
Ga0209234_10018575F001980GAGMQLPNYSAFRGLKAGAIGGIIGALALGILAGLSAFILDQEVFYVTIARKLGLASPLLTGWALHFLVGLIAGGIFIATTALFKRFALDTTRKSFWVGLLGGIAVWILVYVPITDLLAPSDLSNLMFDGGSFIFHLVYGVVTALVSLSLIRRSVRTRTPALAR
Ga0209234_10018578F047614GAGMSEYSEPHESLNLTVVRESAKNYRSFIRKKKAQTERRSIMSMIRRLFAEELEANKQRPHSADAAGFN
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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