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 Ga0209896_1000110

Scaffold Ga0209896_1000110


Overview

Basic Information
Taxon OID3300027006 Open in IMG/M
Scaffold IDGa0209896_1000110 Open in IMG/M
Source Dataset NameGroundwater microbial communities from the Columbia River, Washington, USA - GW-RW S2_20_30 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6405
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (37.50%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Sand → Unclassified → Groundwater Sand → Groundwater Microbial Communities From The Columbia River, Washington, Usa

Source Dataset Sampling Location
Location NameUSA: Columbia River, Washington
CoordinatesLat. (o)46.372Long. (o)-119.272Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F009342Metagenome / Metatranscriptome319Y
F063818Metagenome / Metatranscriptome129N

Sequences

Protein IDFamilyRBSSequence
Ga0209896_10001105F063818AGGMFYNESETIFGKSYPDWVVKWWQSWGYADWRRNRGDVFMVPAKMQNDDINERSFKINKDKPILLSVINWIGPDLKEAKEEIDIVAKEKLDVSLDGKKIAQDSSRILTPFFRLRGKDYVSDGYWLFFKPNVLEEGRHEISSYGSCRSGKIQIAMNYHLSIS
Ga0209896_10001107F009342N/AMQTTFFDTELVIIWEIFLRKFFVYGIVDKMVRIPDSTINLNLYILLSLAATYYITVPVVTGYNVDFYSKGESPFGISYGDWVAKYWNWDLSIPLDPKTNNLLGLNENGCMVHRENSMVMLADTAAGGIWNQKCTISHNAGILIPIWTGECDQGTKGFETASEKQISDCARSYDLGKVKGQVKVDGIPVATLDALDYKTNIMNNVTEVYTKQFNATTPINSHFIVERYGTFPGVAHGWFVFLKPLQPGNHTVYYQNSVEPTTLSGAGNVNSAQFTYHFKVE
 ⦗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.