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 Ga0209056_10021672

Scaffold Ga0209056_10021672


Overview

Basic Information
Taxon OID3300026538 Open in IMG/M
Scaffold IDGa0209056_10021672 Open in IMG/M
Source Dataset NameGrasslands soil microbial communities from the Angelo Coastal Reserve, California, USA - Sample Angelo_114 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6254
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (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 → Grasslands → Soil → Grasslands Soil Microbial Communities From The Angelo Coastal Reserve, California, Usa

Source Dataset Sampling Location
Location NameUSA: California: Angelo Coastal Reserve
CoordinatesLat. (o)39.7392Long. (o)-123.6308Alt. (m)Depth (m)0
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001912Metagenome / Metatranscriptome618Y
F034866Metagenome / Metatranscriptome173N
F104935Metagenome / Metatranscriptome100Y

Sequences

Protein IDFamilyRBSSequence
Ga0209056_100216722F001912AGGMSLSPWDEGSDSDQVRGVDQDVWLVGHRKILAWQWAKLPRYRREGAVEVRPFTAKKRLRVSEAQGLSGEAVKGNPPTTVIPGVDESKSRSSNNRRLDRTGVSTYRRFMVG
Ga0209056_100216723F034866GAGMQSQQQTKGEVIAELRGKTDSFSIKDISSSGVRMENNDVGQITGKYQGNFMETISIHMKSDGTSEWEGKGIQMVGKDMVVATSHGKGKQTADGKVSFEGEVKYMTQSPSLSWLNTTKGWIEGTATQADQTFTAKIYAKK
Ga0209056_100216727F104935N/AVLSIQVSPFYLQIAATGIPATTPLASILGAFTRILLILCSLALLVSSLRPTVWWRPLAVWLSLASLTELFFSLLLFVHAGQTALLTLYGTNPPTSGTISYPARIIGTDLNTYQNPSIAAAFNLDFYLGLLSLTIVGTGTILKMLQERGLLAAAIPGVKEFFLTPPYRQVWLSTNDRTLNPLSQDPETTTDDQLLASFGKIYQTVQPGAMISIILPTWASSISDRFQRLLKWSGFSIEDTGTIYRAPGQP
 ⦗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.