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 Ga0115566_10243630

Scaffold Ga0115566_10243630


Overview

Basic Information
Taxon OID3300009071 Open in IMG/M
Scaffold IDGa0115566_10243630 Open in IMG/M
Source Dataset NamePelagic marine microbial communities from North Sea - COGITO_mtgs_120405
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1079
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → environmental samples → uncultured marine bacterium 580(Source: UniRef50)

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?
F002915Metagenome / Metatranscriptome521Y
F004166Metagenome / Metatranscriptome450N
F093220Metagenome / Metatranscriptome106N

Sequences

Protein IDFamilyRBSSequence
Ga0115566_102436302F002915AGGMKRLILLSLIIPIICQSKEIFTNDQGLKIEYVKPSVSCFYDKEAYEGYLNTCLILPNYETCAQTKYENYICSDENMIKQLEKKVKEAG*
Ga0115566_102436303F004166N/AMKKLILLFLLVPLISCSDHQTNNSWGSYATNKETQKQEFWFISYKTREECIADMSWQLEGEDDPNKKRISNLHTKPYGCHFMSNNKWLSMYYYLVYRDESLGCLWESSNPNVRIKYSVTLRTFVNVPEQGRCILGD*
Ga0115566_102436304F093220N/ADWDVVVELNKSNVKIDRMQENLNIIDKNVRVLEKIIDITENNLIDAINNACNIKAN*
 ⦗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.