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 Ga0335016_0001260

Scaffold Ga0335016_0001260


Overview

Basic Information
Taxon OID3300034166 Open in IMG/M
Scaffold IDGa0335016_0001260 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME13Sep2012-rr0079
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)24146
Total Scaffold Genes30 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)26 (86.67%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

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?
F006544Metagenome / Metatranscriptome370Y
F029728Metagenome / Metatranscriptome187Y

Sequences

Protein IDFamilyRBSSequence
Ga0335016_0001260_13545_14117F006544AGGAGGMTTLVAIQGNGWAAVGCDSRSSGDDGRFMELATHKIIENNGILIAGSGASRGSNILQFGWKAPKPRATDDLDVFMTQTFIPAMRKLFIDSGYDMKEDGDAAAHDSQFLLVVRGVIYPIFEDYSWDRDVRGIYCSGSGADIALGAIEAFANSRKQTTPKVAELDIRMAIKIASRWDIHTAEPVVVKVQSAK
Ga0335016_0001260_4097_4534F029728GGAMMYLNPITVDAVTYNFTEDSLKELIKSESTTKLRLESVSLEAQEGYRKIATLRGKVYDFFSEAFDDGSDEVTVTRDDVNELLESIGSDVLTATWSATVEITVTVTGIKATSPEEVEDIITDNIEVSGYDLELHDPDVRVQDIERE
 ⦗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.