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 Ga0208858_1000361

Scaffold Ga0208858_1000361


Overview

Basic Information
Taxon OID3300020524 Open in IMG/M
Scaffold IDGa0208858_1000361 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 16NOV2012 deep hole epilimnion (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)8901
Total Scaffold Genes17 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)14 (82.35%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
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 → Lentic → Epilimnion → Freshwater → Freshwater Microbial Communities From Lake Mendota And Trout Bog Lake, Wisconsin, Usa

Source Dataset Sampling Location
Location NameLake Mendota, Madison, Wisconsin, USA
CoordinatesLat. (o)43.098333Long. (o)-89.405278Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000403Metagenome / Metatranscriptome1177Y
F000903Metagenome / Metatranscriptome843Y
F001897Metagenome / Metatranscriptome620Y
F005503Metagenome / Metatranscriptome398Y

Sequences

Protein IDFamilyRBSSequence
Ga0208858_100036110F001897AGGCGGMAFMDSYEGNKERTDRWIATYPQGRLETHIIEFNAEKGYVLVQAKAWRNQTEIDPAGIDYAHGFLAAYSEKMRRWMVEDTCTSALMRVMALVMGGTEKATKEVMTLVKTETPAADYDYWTTKHGDVPSYKTREEAEQVDETGWAVNGVPMCAHGSMRWNQSKPDAPKAWAGYFCSEKIKEKQCKPQWYVLTSDGTFKPQV
Ga0208858_100036111F005503GGAGMTSGEIGVFIFMVVACILWAICSYAVGYKEGHKDGYQRGKAVGRHASGQAVR
Ga0208858_10003618F000903AGGAGGMIAAISHCHDRSADHSSRIVKNLSWFEYVAQMGESMLAEMVVAKRLGYDYQPGITWDKSKADVGEHIEVKWSPNPNSNLWIQESDREDRDIAVLVTGNAPKMHIVGWMPVAVAKKPRYKNTSQNNWTVPQVNLQPIETLIRSNYAHPAI
Ga0208858_10003619F000403N/ALDIGKMSDYIEIIHPQSMTAKLLCNGVLVEEYKIEQCDKCSQLRRLDQFGYQKGYDRTENIIWFCGECR
 ⦗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.