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 Ga0102963_1023099

Scaffold Ga0102963_1023099


Overview

Basic Information
Taxon OID3300009001 Open in IMG/M
Scaffold IDGa0102963_1023099 Open in IMG/M
Source Dataset NameSalt pond water microbial communities from South San Francisco under conditions of wetland restoration - Salt Pond MetaG SF2_C_H2O_MG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2614
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (81.82%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Non-Marine Saline And Alkaline → Saline → Unclassified → Pond Water → Salt Pond Water, Soil And Salt Crust Microbial Communities From South San Francisco Under Conditions Of Wetland Restoration.

Source Dataset Sampling Location
Location NameSouth San Francisco, USA
CoordinatesLat. (o)37.4973Long. (o)-122.1295Alt. (m)Depth (m)0
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003051Metagenome / Metatranscriptome510Y
F010318Metagenome / Metatranscriptome305Y
F010532Metagenome302N
F032867Metagenome / Metatranscriptome179Y
F087019Metagenome / Metatranscriptome110Y

Sequences

Protein IDFamilyRBSSequence
Ga0102963_10230991F032867AGGAGMDDFEKMIDDLIDNHYRRQHLIGTEADESEYLADISEEDDEC*
Ga0102963_10230992F010318GAGGMNVDSDKPRYLECIYEAPITFDLEELGIDWDNVKDYYIKYGTLYVEFKDGSSEEHEGNQGETDWKWSAQENILTEDWTLVEGLN*
Ga0102963_10230994F010532AGGAGMNRTLYKKLEDICAREYILNKLSATKYRTFVDFLYDDIKTWNEPMNVSEVDIIHRIEEHMSYMVSSYLNKPYESTSRNEQALTGA*
Ga0102963_10230998F003051N/AMKTKILKNKVTIEMNNEEYDTMFKYIDKLRSMLNTLHETNDLWLSDVQNLHSLKWELVEMLDAEWNSNTYKYVKRGSK*
Ga0102963_10230999F087019GAGGMIGELIGLGFVILFMLVSLTAVGFIIADSDYDKKRKDD*
 ⦗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.