NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
x
This website uses cookies to improve user experience. By using NMPFamDB you consent to all cookies in accordance with our privacy policy. OK
Scaffold Ga0209234_1000907

Scaffold Ga0209234_1000907


Overview

Basic Information
Taxon OID3300026295 Open in IMG/M
Scaffold IDGa0209234_1000907 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)10787
Total Scaffold Genes15 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)12 (80.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

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
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F009323Metagenome / Metatranscriptome319Y
F010455Metagenome303Y
F016382Metagenome / Metatranscriptome247Y
F024995Metagenome / Metatranscriptome203Y

Sequences

Protein IDFamilyRBSSequence
Ga0209234_10009071F010455AGGLGKRSEQTPHEMAEETLGAIKEFRLYLEGVEKNLSSMSKKFANKEIAQGVGFAATWIHEALTYLAIVKKVIEKTERMVAKKAIVSSDETGGLDESHSDGRTSLSAST
Ga0209234_100090710F009323AGTAGGMVDTVVISTLYFISVFQLILQAGVVFYAYRVTKLTGSFRAWTLIIAAFTLLTVRNVVSLFLSLSLPADQLAALIDSVGVVTLILSSAINIAAGVALFLGMFGLAKRFENQSKAPT
Ga0209234_100090713F024995AGGAMASRVNESVWKSPHGTFEPVSRSLSPDQRFAAENAFSSVLASTIREAVGDALGRNVLEILTLKGLLDATNNSKEFDSKLRSLFGNGAAVLEKIVVKDLNRKLGIRYDSEASFDYEKSLETAREVCFVESRLK
Ga0209234_100090714F016382AGGAGGLRSSLVDIFYETLGYCFGKALLETLGPTVQATVYDLLGRSGIRKEEVSNRFDDVVGALTKTLGACSRVVVHRTVVEMFKEYSQRLDFSYTDSLRDRLALLKETVVANHVLPHRLRDESAFDSVEKPDWVDVPKGQAYSSLYPMKKGVKT
 ⦗Top⦘



Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
© Pavlopoulos Lab, Bioinformatics & Integrative Biology | B.S.R.C. "Alexander Fleming" | Privacy Notice
Make sure JavaScript is enabled in your browser settings to achieve functionality.