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 Ga0334992_0006294

Scaffold Ga0334992_0006294


Overview

Basic Information
Taxon OID3300033992 Open in IMG/M
Scaffold IDGa0334992_0006294 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME16Jun2014-rr0035
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)8333
Total Scaffold Genes18 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)16 (88.89%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lake → Unclassified → Freshwater → Freshwater Microbial Communities From Lake Mendota, Crystal Bog Lake, And Trout Bog Lake In Wisconsin, United States

Source Dataset Sampling Location
Location NameUSA: Wisconsin
CoordinatesLat. (o)43.0995Long. (o)-89.4045Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002052Metagenome / Metatranscriptome599Y
F015332Metagenome / Metatranscriptome255Y
F021758Metagenome / Metatranscriptome217Y

Sequences

Protein IDFamilyRBSSequence
Ga0334992_0006294_1571_2200F015332GGAGMFTAEQVWGLAVEADRINDGYLKEDLWDAAEAGVRIKTANKVLVKQWLREERQPSVEDVEKGREIRHYFNGFLLKQISGKINDFERQALRIAQIDEFTSKNLLEFAIVSCLPSTQRRDVDKNALAAEVRNSTQLTGQVGDKIQGEIEIVKSYYSQEYNKFRITAKLVDSFVDFWYNTNMDTGSRVSIKAKIKSVRGDNTTQLNFVKRIG
Ga0334992_0006294_7594_7887F021758AGAAGGMKVIKLDRRYSGYGTWTHRTNGGYWQGEEARAKGLMSFYDMRCYMTQMNGPGCFIHEAWALKKAGRAVPEWAWDVDGNVFFRDSALVNFTLAKDKWV
Ga0334992_0006294_7905_8063F002052AGTAGVFTVECASDGNPDLIRAEEMIQLNMQELIYDDEFIAALDEKESVTIQVNLVK
 ⦗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.