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 Ga0209230_10039678

Scaffold Ga0209230_10039678


Overview

Basic Information
Taxon OID3300027836 Open in IMG/M
Scaffold IDGa0209230_10039678 Open in IMG/M
Source Dataset NameFreshwater and sediment microbial communities from Lake Ontario - Sta 18 epilimnion Metagenome (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2414
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (57.14%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Unclassified → Freshwater And Sediment → Freshwater And Sediment Microbial Communities From A Dead Zone In Lake Erie, Usa

Source Dataset Sampling Location
Location NameCanada: Lake Ontario
CoordinatesLat. (o)43.933506Long. (o)-78.003845Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F015354Metagenome / Metatranscriptome255Y
F023295Metagenome / Metatranscriptome210Y
F048257Metagenome148N
F063343Metagenome129Y

Sequences

Protein IDFamilyRBSSequence
Ga0209230_100396783F048257N/AMTAFPSSVAARQCLRGEGCSESVYWVLRRTLLINSGLRFAGERKNTLKKSFYGALAVQAFVMAWTATHMDEPVASLPSGETAIGGNAFEILGTYLTRSAIVGTGLWLGGERKNLLRNTLAGTAMIQATVLLWAQGKEL
Ga0209230_100396784F063343N/AMNYLILLGILGLFILGNKVRTNWVSGIKSTLIKLMIPGADRRLFSGFTQSTFSWVRNPASWVRVFNWTGVAAGINGLGGVGGGTLISRRHVLLANHVPYPARPFDIFFANASSRTFTYKVTNIQQVGDTDIAIGTLDRDADPSLNVYRVLPDNWSQYIANTVIPASATFAAVGLTAPTQAFVLPVLYSGQDRKVSTADVVSILSGLAGVNIPAFEVARAFGDGVKGGDSGNPIFAMLGDELVLLGAWYTGPDRGFTVGTFPWLITQRGAIEKIMGMRLQVADMSGLDRIA
Ga0209230_100396785F023295AGGAGVLLSMLQSIGCQTRVILVPDGQPVQLAEPVRAKVFAFDSTGKPVPSSNRVILPAGWYVLPRK
Ga0209230_100396786F015354GGAGMNPNLSSLIRHGLTAAGGFLVAKGLASADQIGELAGAVVTLIGLVLSMIKNKKAAVPTPPPAA
 ⦗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.