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 Ga0209297_1004946

Scaffold Ga0209297_1004946


Overview

Basic Information
Taxon OID3300027733 Open in IMG/M
Scaffold IDGa0209297_1004946 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Simoncouche, Canada to study carbon cycling - S_130805_MF_MetaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6925
Total Scaffold Genes15 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (46.67%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lake → Unclassified → Freshwater Lake → Freshwater Microbial Communities From Northern Lakes Of Canada To Study Carbon Cycling

Source Dataset Sampling Location
Location NameLake Simoncouche, Canada
CoordinatesLat. (o)48.2311Long. (o)-71.2508Alt. (m)Depth (m)5
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F012434Metagenome280Y
F016936Metagenome / Metatranscriptome243Y
F024061Metagenome / Metatranscriptome207N
F029363Metagenome / Metatranscriptome188Y
F042326Metagenome158Y

Sequences

Protein IDFamilyRBSSequence
Ga0209297_100494613F042326AGGAMISDALTLAAIFVSGGLIGYIIGAARGRKRGRDEQWVESFLAYEKREKARRETDGRFKTKTK
Ga0209297_10049464F012434N/AMSPTTALTHALILAITAPNQARADRAIALAESIGAGCTAKQVAQAKRNAAKLTK
Ga0209297_10049466F029363N/AMNNDDNETEQEMTWAAKDLRTMTSCKAEIAISRRVTIKPNAIKESWDYQITFGDILNRGAWRWECAQADTLEGAMDITRAQIKAQGDEKARELLQLQDAAAKLGLKLVEVTP
Ga0209297_10049467F016936GGAGGMNLELIHAELVRIREALEARPFASGAPAAKPAPSLAKSDEVPMPTEIIADAGNVQVHFGKNKGVALSSLGDRSVAWYAQEPEPRIGNNGKPFPPRPEDLLLRNAARTLIHQKRGTLPSAAVPTTPVANIDEGDVSF
Ga0209297_10049469F024061AGGGGGMNTGEIKNAAVVNNATEQFRSLLETHFIAIARAAEESFVEEENQTEPKAKASFALEWDALSLAPKVVVKIGWSVRYKDETEAMVDPLQSKLGLVEEAK
 ⦗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.