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 Ga0164293_10048954

Scaffold Ga0164293_10048954


Overview

Basic Information
Taxon OID3300013004 Open in IMG/M
Scaffold IDGa0164293_10048954 Open in IMG/M
Source Dataset NameEutrophic lake water microbial communities from Lake Mendota, Wisconsin, USA - GEODES118 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3413
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (80.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lake → Unclassified → Freshwater → Freshwater Microbial Communities From Oligotrophic, Dystrophic, And Eutrophic Lakes In Wisonsin, Usa

Source Dataset Sampling Location
Location NameUSA: Wisconsin
CoordinatesLat. (o)43.099Long. (o)-89.405Alt. (m)Depth (m)7
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003961Metagenome / Metatranscriptome459Y
F020863Metagenome221Y
F060700Metagenome / Metatranscriptome132Y

Sequences

Protein IDFamilyRBSSequence
Ga0164293_100489541F003961GGAMTEKSSDIAKRLILSGVAEGLTIEAATAAAGKSYKTYEYYRRTDKVFADKMDRTRLGLKDKNFASSDVHDLTFTEFRE
Ga0164293_100489547F060700GGAGGMKTLRELAQEAGIDEKYFDGNFLMLDQRYAIMQDEKGLHLTDVMSWASFSPRTIGRKSNATAKGLQFQLGQYKVWMKQIGQKVG*
Ga0164293_100489549F020863AGGMQTTIEEVRSLVATLEKLIEPLFEGEVVEDAPYESMKRPHLVLQEGSKTYGRAWRVHFTGGSKYGSGHWEPRGFSDYLGGSKAEAAHSLRKLIAGIHTGLLIAEKKEDVA*
 ⦗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.