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 Ga0335004_0002858

Scaffold Ga0335004_0002858


Overview

Basic Information
Taxon OID3300034021 Open in IMG/M
Scaffold IDGa0335004_0002858 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME01Oct2014-rr0057
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)12963
Total Scaffold Genes20 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)15 (75.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
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?
F001326Metagenome / Metatranscriptome721Y
F001872Metagenome / Metatranscriptome623Y
F003964Metagenome459Y

Sequences

Protein IDFamilyRBSSequence
Ga0335004_0002858_10876_11406F001872N/AVAIAKAKAGVPNARDYIGNADGASPAPRAGMNEWIKQAIAASNGALWNNGSWGQRDMRGKPGSLSVHATGRAVDLSYRRSEKNPKAGRKEALIFIDKLVANANDLGLQCILDYFPEPQGRAWRCDRYAWLKYEKPTIHGAPGGDWFHIEITPQAADSVIWVKAAFLKVFGEIPPKA
Ga0335004_0002858_4268_4900F001326GGAGMATYTVTNKYLIDNFAVLQLLTPSEIAVGSSITVAGVDATFNGSYSVRALPQYLFLGIDTQGDLLYDYQVPIADQVLYAKTASDVERVAASGTVANDPVCTWVTAAQVMSYLGITITNPSDDYTLLTQSVSAGNQFCYRRRQESGYIDSLTTSPGGDATLGTLMYCAALWRSRGSIEATYATFDGMGSAPQQSLTPIVKQLLGIPRPAVA
Ga0335004_0002858_6198_6701F003964GGAGVSTKIEVVGLKEALKTLNKIDKSLRREITKDYKKIVQPVIDDANKLVPSNVPLSGMARNWSTRSGFKMLPWIPGMKQKIAAKINTRNIKEYGGNKSNVGTFAIQWQGATGTMFDMSMAGALGRALSERYGDRSRVMWKAYEQRENDVMSEMEQLVKRVMSEANRETA

 ⦗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.