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 Ga0208326_100002

Scaffold Ga0208326_100002


Overview

Basic Information
Taxon OID3300020494 Open in IMG/M
Scaffold IDGa0208326_100002 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 25SEP2008 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)38792
Total Scaffold Genes64 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)38 (59.38%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria(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)43.099444Long. (o)-89.404444Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F038652Metagenome165Y
F080077Metagenome / Metatranscriptome115Y
F091963Metagenome / Metatranscriptome107N

Sequences

Protein IDFamilyRBSSequence
Ga0208326_1000021F080077AGGAGGMAINPNQISVAKIYPGNYTNVLRYWHEEKSVVYNNENGTSETLVDQPVGGPVGVIFRPGWIAQQAVGYVDLSYQALGSVNQLEYYTT
Ga0208326_10000255F038652N/AMATTICTIAARELELYALNFSEAHYNSVGKTLSKFYQKGTFNLDRAIAYVERYLLVPAAKDYQREVGSMTTAWNTAFPKPERLAAAESIAHAFVSEFRLGNFW
Ga0208326_10000259F091963N/AMPNHIPFDLYALDCYSLTYHALARFKQLVQNDCTLPPDIVDKIEDEVIPALEYIEGWEPSDADIQAYVDSHGMI
 ⦗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.