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_1018486

Scaffold Ga0209716_1018486


Overview

Basic Information
Taxon OID3300025626 Open in IMG/M
Scaffold IDGa0209716_1018486 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)2877
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (71.43%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

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?
F001588Metagenome / Metatranscriptome667Y
F011629Metagenome / Metatranscriptome289N
F098809Metagenome / Metatranscriptome103N

Sequences

Protein IDFamilyRBSSequence
Ga0209716_10184861F001588GAGGMQNTTTKTNNVFLNACNACIVVTVNNTVVATDVQTADALVQVFLTHNINVLTDTIMCSSSIDFAEEEGFASDASAHNIIDEAFEALA
Ga0209716_10184866F011629GAGGMLNTTQVKDLVKQRFGGSLKQVYLNKCYSNKQELADKRNMAFAVDGDAYKGVDLTALAQEIGCKRVKLHAAFLRGMQSGCWLRLQHVSYNK
Ga0209716_10184867F098809N/ATQCVLDNYFTHKDETLATAFETAIDYRYDDDCINEGISEHFFDYCKKHNILDFYFKQADAHDYDGEDANMRMYKS
 ⦗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.