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 Ga0255074_1006427

Scaffold Ga0255074_1006427


Overview

Basic Information
Taxon OID3300027121 Open in IMG/M
Scaffold IDGa0255074_1006427 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Columbia River, Oregon, United States - Colum_Yuk_RepC_8h
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1622
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (16.67%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → River → Unclassified → Freshwater → Freshwater Microbial Communities Amended With Dissolved Organic Matter (Dom) From Various Rivers In The United States

Source Dataset Sampling Location
Location NameUSA: Oregon
CoordinatesLat. (o)46.1812Long. (o)-123.1834Alt. (m)Depth (m)5
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F022886Metagenome / Metatranscriptome212N
F030763Metagenome / Metatranscriptome184N
F053288Metagenome141N

Sequences

Protein IDFamilyRBSSequence
Ga0255074_10064273F053288N/AMITIKNYNSDVGHGTFYGWDMKYALEDKDFYSFEFEHRNEQKRVYVLVHRNSKKRTKHVVSEDLHEVYIQDMVSDKWRRTLNLTKPQLNKSAFYNWVESVIDDEYPLPF
Ga0255074_10064274F022886N/AMITIKNWDKLTRLFRSQIDIGELELYYEITYYYPTLPSNEYYRITLSRISPPQQDHPHKDEYLMLCGVSEYWLNKKELENVNSVYDAIVDVVVRHNLKVRV
Ga0255074_10064275F030763GAGMLVIKNYKKIKNKYFGDWQVGKVEELPECYAMQVWSTTEKKSVTLAILRQPMMDELEYDTAYRISLVEDDKKPSNIIDDVIYHSVLEDMELFGESLTHYLNTI
 ⦗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.