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 Ga0255090_1024139

Scaffold Ga0255090_1024139


Overview

Basic Information
Taxon OID3300027123 Open in IMG/M
Scaffold IDGa0255090_1024139 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Columbia River, Oregon, United States - Colum_Yuk_RepA_8d
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1033
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

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?
F018350Metagenome / Metatranscriptome235Y
F048258Metagenome148N

Sequences

Protein IDFamilyRBSSequence
Ga0255090_10241392F048258AGGVVEWVLMSDGYDNGKMNMLLERYPIVNVGWKYVGSSDTIRWSLGEVVVNMYIGNGGNLVKKNHMTQMEVMNEGYINGAVMRRGYDKVYSYFIRQVKYSKIVNVNGGQLYYIDRDNDVPELLTDPWHRRFIKYMGIVRNDMVDVYSDVYEGLSIQSSRSIRNKNVICSVDVTSIEGHRVYCLHLYN
Ga0255090_10241393F018350N/AMTARNTMTFKEIVDKYPIVNTDWWECNHNHIGSMSHRIMAVTGIDTYHGIKQFHQYLGITSYFTRIRKDDGSSVIFNRDPWMREFKMYYTRGGIKNGVYECKRIDGVNGGNDVYVMVTTVEG

 ⦗Top⦘



© 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.