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 Ga0244776_10000790

Scaffold Ga0244776_10000790


Overview

Basic Information
Taxon OID3300024348 Open in IMG/M
Scaffold IDGa0244776_10000790 Open in IMG/M
Source Dataset Name0.2um to 3um size fraction coassembly
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)36018
Total Scaffold Genes55 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)48 (87.27%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
Not Available(Source: )

Ecosystem & Geography

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

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

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F005320Metagenome / Metatranscriptome405Y
F026266Metagenome198Y
F086803Metagenome / Metatranscriptome110N
F099290Metagenome / Metatranscriptome103N

Sequences

Protein IDFamilyRBSSequence
Ga0244776_1000079019F005320AGGAMSIDTLKPVKVAGEIFWSNWMNTFNTKFNEDNKKYECTIGNLSDAACEKLKELGINIKNKESMGNFIVAKSTYLFTPVDEEGNPVDIAKMGNGTKCHAVISSYRHKMSAKFGAAPSIKKLIVTELKVYSPEGAEEEETADDVL
Ga0244776_1000079029F099290N/AMILDFEFKTGLVFGIEADELYIMDENDKMSDEANQVIYLHIGFITLAFIF
Ga0244776_1000079049F086803AGGMKFKCIQSGNTVEFFQEHEIAEMRKHTGYTEVIEVAETPKVVSSKKTVKQDETNIDG
Ga0244776_100007906F026266AGGAMTIETITFHFVGALEDSFAIVDVQCQIDEDGDCRDLDSVKYEGFDVLQVISHFQWSDLEWQASKAYKAEHDEQQTIDHDNQSPLEAVYGLSKPSLNIR
 ⦗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.