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 JGI10216J12902_126329387

Scaffold JGI10216J12902_126329387


Overview

Basic Information
Taxon OID3300000956 Open in IMG/M
Scaffold IDJGI10216J12902_126329387 Open in IMG/M
Source Dataset NameSoil microbial communities from Great Prairies - Kansas, Native Prairie soil
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)984
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Grasslands → Soil → Soil Microbial Communities From Great Prairies (Kansas, Wisconsin And Iowa)

Source Dataset Sampling Location
Location NameKansas, USA
CoordinatesLat. (o)39.214012Long. (o)-96.585283Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002111Metagenome / Metatranscriptome592Y
F007262Metagenome / Metatranscriptome354Y
F021376Metagenome / Metatranscriptome219Y

Sequences

Protein IDFamilyRBSSequence
JGI10216J12902_1263293871F021376GGCGGVYLKHLSSLEFLTYVAFFTIVVAALWRLLPGKTPPVRTVPYPEQQLGAHDPKLAKYFVAGGGFLVL
JGI10216J12902_1263293873F002111GAGGMAAAPPFVAYSSLTETLVPAADWPEVYASLQALKGHVQEYPGCQGFDVFTRVEQGDDVRVHCYTTWDTSVQLEAFLERGYTFERLLVDLGQGLEAERSLMMEKVF*
JGI10216J12902_1263293874F007262N/AVDWLSLAWLWGFIIVLVIGAGLWVKQYRTSSRRAGIYPVDRFGGWATEAAGPATAFFLILTAFLTAFAVVMVITHLIWGQRF*
 ⦗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.