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 Ga0244775_10033834

Scaffold Ga0244775_10033834


Overview

Basic Information
Taxon OID3300024346 Open in IMG/M
Scaffold IDGa0244775_10033834 Open in IMG/M
Source Dataset NameWhole water sample coassembly
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4535
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (50.00%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (33.33%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Crocinitomicaceae → unclassified Crocinitomicaceae → Crocinitomicaceae bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameUSA: Columbia River Estuary
CoordinatesLat. (o)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004583Metagenome / Metatranscriptome432Y
F006220Metagenome378Y
F007310Metagenome353Y
F008494Metagenome / Metatranscriptome332N
F009750Metagenome313Y
F013084Metagenome274Y

Sequences

Protein IDFamilyRBSSequence
Ga0244775_1003383411F008494N/ALSNIFILLATHIHNDIIRHRTKELEMTKTEVITMFMGAVDKYTKAIDKTAESNISYKKSVYALEDAVNLIYRNVDAKELGSNAEARNAKVSEQTQTLIVAKREAEFELEVARANESRIKAEVDQIKYIIRALEVKEEA
Ga0244775_1003383412F009750GAGMILKNAIFEPSHTMKEIVTAIYQNGVFKDNKILKPHLTDRIGIRMKFPEGAECILWTNGKKYYAVCEAFGTIFTVNIPRNLGDDIWEKFKTHFEGNYSYKPF
Ga0244775_100338342F004583AGGAGMKSTKNSDRLREILFSTRNQIVSLKDIQIDMLRIDTKVANEIATQISALEEVYKHQLSLVTKTENLEPKRNGWFSGHIKTKEERLANIMD
Ga0244775_100338344F006220N/AMKKFKKFIEELAIATGTEMMRASQMRPTTFKDKSKYSRKQKHKNRQDKNSGDSYLQSL
Ga0244775_100338345F007310N/AMRTVLWVTNDNERWYNHHHYEFLIEDITGFNLQKDLCAESVKYMAKRLKDTPYNRVFRNKYSIYQDEYKTLVEKFNSQADNNGRIVVE
Ga0244775_100338346F013084N/AMGILSILGLMEETKNIVLSRGHNVKNWQVLGNDCYALECADCKKTVMIKEHPLPNEIKVGGEAVAVNCVKPVKEKKLRKK
 ⦗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.