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 Ga0209350_1000316

Scaffold Ga0209350_1000316


Overview

Basic Information
Taxon OID3300026277 Open in IMG/M
Scaffold IDGa0209350_1000316 Open in IMG/M
Source Dataset NameGrasslands soil microbial communities from the Angelo Coastal Reserve, California, USA - Sample 09_27_2013_2_20cm (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)29835
Total Scaffold Genes27 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)23 (85.19%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Grasslands → Grasslands Soil → Grasslands Soil Microbial Communities From The Angelo Coastal Reserve, California, Usa

Source Dataset Sampling Location
Location NameAngelo Coastal Reserve, California, USA
CoordinatesLat. (o)39.73825Long. (o)-123.6301Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000043Metagenome / Metatranscriptome3655Y
F003831Metagenome / Metatranscriptome466Y
F011404Metagenome / Metatranscriptome291Y
F058223Metagenome135Y

Sequences

Protein IDFamilyRBSSequence
Ga0209350_100031614F011404AGGAGMQVIGRKAWLILLFAAIFQASQFHYCCDLTATPSASHICPVCSTAASVVATQSPVIAVVPVINRLEFTPLIISVSSAVERATSPRAPPSL
Ga0209350_100031623F003831GGAVAGESKADGGSIRSAIRWGLVLAAVATFGFRLPRLVHEMRAWRGAVQLGDTSGAEGLRTFVVADSIGLLVVLAFGVVIYFVLRPRSTSQP
Ga0209350_100031624F000043GAGMMHQLGWATLPGLRGLSVSEFRATPTNTPDNDRGVAIEFASEAEREAFLREIEAAFAARRFTNSADAFDTVKAWAQERVVKDRGGRVL
Ga0209350_100031625F058223GGAGGMKNAIETTVRILKRNPGTLLQSKDEEYAYWQSRPPIERLAATQELSFAFFEERGNEAEIRRQFLRSPVCLPRLSC
 ⦗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.