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 Ga0244775_10057077

Scaffold Ga0244775_10057077


Overview

Basic Information
Taxon OID3300024346 Open in IMG/M
Scaffold IDGa0244775_10057077 Open in IMG/M
Source Dataset NameWhole water sample coassembly
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3382
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (10.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameUSA: Columbia River Estuary
CoordinatesLat. (o)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F014834Metagenome / Metatranscriptome259Y
F021776Metagenome / Metatranscriptome217Y
F082545Metagenome113N

Sequences

Protein IDFamilyRBSSequence
Ga0244775_100570776F021776N/AMTKDELEVKISTLQNLVMQKNEELTQYAEQIKTLNKELIDISKPKLTLLQFDEVMEACEEAVGNFDFDDTDNYSVDFHIDYDNRIAIESLSFDNANELARVLFDEIASVFGEAKEDSDNS
Ga0244775_100570778F014834N/AMKNTNEIEKQLARKADAYIEQKVKEMYAIHQEIADYTGTSTSFINYITHFNSYDSAAPENKDNHTAFCDAHQTKKKYRLELEMNYKKRLVAKYTKELIAKLDIFE
Ga0244775_100570779F082545N/AMDFTYITVLDFASGKVYQYNLAEVGDNYLFEDKDEPQCEEVEELLIDQGHELSDIQWMIHADSTLNQIKL
 ⦗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.