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 Ga0134088_10000009

Scaffold Ga0134088_10000009


Overview

Basic Information
Taxon OID3300010304 Open in IMG/M
Scaffold IDGa0134088_10000009 Open in IMG/M
Source Dataset NameGrasslands soil microbial communities from the Angelo Coastal Reserve, California, USA - 15_D_Rain_20cm_5_09182015
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)41047
Total Scaffold Genes42 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)30 (71.43%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Archaea(Source: UniRef50)

Ecosystem & Geography

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

Source Dataset Sampling Location
Location NameUSA: Angelo Coastal Reserve, California
CoordinatesLat. (o)39.7181Long. (o)-123.6527Alt. (m)Depth (m).2
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001912Metagenome / Metatranscriptome618Y
F006078Metagenome382Y
F012006Metagenome / Metatranscriptome284Y

Sequences

Protein IDFamilyRBSSequence
Ga0134088_1000000913F001912AGGCGGMSLSRWDEGSDSDVVTGLNWDRWLVGHRKILAWQWAKLPRYGREGAVEVRPFTAEKRLWASMAQGLSVEAVKGNPTTTVIPGVDESKSSLQTSRGHDGT*
Ga0134088_1000000921F012006AGGMNGIDLATKRDVITSCDYETCLTIRSNNGSNTMIVVKSDGMLRSTEAGRNLGDDNHCEPLENRAVGVPLP*
Ga0134088_100000098F006078N/AMQAQKTAGLGAVTPLEPKVKVAPQSVFYALHACRGTCASGCGVSQTRVAEIVFGIEIVEWDLCSVCLSRTGFLEYFNSLPSATPREAEEIKILLGISNETLERQNRSTPPMT*
 ⦗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.