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 Ga0335025_0002062

Scaffold Ga0335025_0002062


Overview

Basic Information
Taxon OID3300034096 Open in IMG/M
Scaffold IDGa0335025_0002062 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME15Oct2015-rr0098
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)15623
Total Scaffold Genes26 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)20 (76.92%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

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?
F001872Metagenome / Metatranscriptome623Y
F002794Metagenome / Metatranscriptome529Y
F003964Metagenome459Y
F009743Metagenome / Metatranscriptome313N

Sequences

Protein IDFamilyRBSSequence
Ga0335025_0002062_14174_14437F002794GGAGMSEGVAWNQGELSEETRQMVLEQAMTTRHDMAIFDLINQIADTSKNPHASIIQRLKTMKNQLSLEEPMPLYDVTTLDLAIKALQAHS
Ga0335025_0002062_15142_15582F001872AGCAGGMNEWIRQAIAASNNAVWNNGSWGIRDMRGSVGSLSVHATGRAVDLSYRKTEKHAQANRKGAVSFIDVVVANANTLGVECILDYFPSPYGRAWRCDRQAWKKYSKPTIGGAPGGDWYHIEITPQAADSVIFVKAAFLKVFGEIPPKP
Ga0335025_0002062_3822_4334F003964GAGGMAEVSARIEVVGLKDALKTLNKIDKSLRREITKDYKKIVQPVIDDANKLVPTGVPLSGMARNWSTKSGFKMLPWVPGMKQKIAAKINTRNIKEFGGNKTNVGTFLIQWKGATGTMFDTSMEGPLGRALTARYGSRSRVMWKAYEQREGAVMSEMEQLVKRVMDEANRENT
Ga0335025_0002062_4447_4746F009743AGGAGMKIKLQLKRTADSAPEYYYTNLFVVTEWERLERRNIQQLSANPLYSDYACWMHTILKIKGEQVGDSWREWLSKNPELEILPVLDETDPNPTDAAPTAAN
 ⦗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.