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 Ga0209716_1001428

Scaffold Ga0209716_1001428


Overview

Basic Information
Taxon OID3300025626 Open in IMG/M
Scaffold IDGa0209716_1001428 Open in IMG/M
Source Dataset NamePelagic marine microbial communities from North Sea - COGITO_mtgs_120531 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)18034
Total Scaffold Genes40 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (15.00%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (16.67%)
Associated Families6

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Pelagic → Unclassified → Pelagic Marine → Pelagic Marine Microbial Communities From North Sea

Source Dataset Sampling Location
Location NameGermany:Helgoland, sampling site Kabeltonne, North Sea
CoordinatesLat. (o)54.1883Long. (o)7.9Alt. (m)Depth (m)1
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001728Metagenome / Metatranscriptome645Y
F007114Metagenome / Metatranscriptome357Y
F024892Metagenome / Metatranscriptome204Y
F064116Metagenome129Y
F069992Metagenome123Y
F097122Metagenome104N

Sequences

Protein IDFamilyRBSSequence
Ga0209716_100142810F064116N/AMKDLIDFKNAQITALQKRLFELETKVGNYETYIFELTDENYPTEYKQIVKNELLKTE
Ga0209716_100142813F001728N/AMNDIKLKPTENEDHYRLLLNGVDVTGEQERSVFRHIIETIDNGIEVGI
Ga0209716_100142829F097122N/AMKEQLKDKILSIRPEYSTEGFSSNPLPNEVSIYYEGEDFTIDLFLDINEVLRIEILEGEDIYDLSYEDVIFLCGYLSGLLEYEIQITKNYYDAERGQQDNYY
Ga0209716_100142837F069992N/AMYTLKINNNLSRKLISTNKGFICYNLTDDKTQIDDFILTDDLYRYKNRYQSFKALSCIKKQFNTITF
Ga0209716_10014287F024892N/AMSKEYKRKEYSFSLHKVDYTDSYTKEMDCEGLSVLKWSMFDSPDKLGSGKYFMESEPVFILDEVFRKDRMSGFILQGYTSKTYADKIALPSNSGHRVGKSIKFRCINKTKRFKMIRGLIQYGIERIQVTNEWIYFDTDNYLKDPEFNCV
Ga0209716_10014289F007114GGAMESITKINDSAWEKLKKQIEYHLEQDSNLTDIRINYQVKIPERGTRNYLGLNVNINE
 ⦗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.