NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0209488_10000972

Scaffold Ga0209488_10000972


Overview

Basic Information
Taxon OID3300027903 Open in IMG/M
Scaffold IDGa0209488_10000972 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from the Eel River Critical Zone Observatory, Northern California, USA - Rivendell_Oct2014_Saprolite_2_DNA_Bulk_2 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)24356
Total Scaffold Genes25 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)20 (80.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families2

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Vadose Zone Soil → Vadose Zone Soil And Rhizosphere Microbial Communities From The Eel River Critical Zone Observatory, Northern California To Study Diel Carbon Cycling

Source Dataset Sampling Location
Location NameUSA: California, Eel River Critical Zone Observatory
CoordinatesLat. (o)39.7291Long. (o)-123.6419Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F020869Metagenome221Y
F056477Metagenome / Metatranscriptome137Y

Sequences

Protein IDFamilyRBSSequence
Ga0209488_1000097219F020869N/AMICPACNTEFPHGTVFCSRCHVTLVADLVEADTIVEKAYPGSALVHLWRGEDAALHASILEALAEANIPFYEQPLGSGPSARPIDALLDHAHPRFGFEVAVLSSNLAKAEVILEKLLNEGPVDMELIADEAAAPAKPRPRSSSLDAAICEVWSGEDENLAGFLGAALKENGIPVRTERHGQKITVCAPLEDQGHAREIILEIVDGTPPE
Ga0209488_100009725F056477N/AMDSPANRSASVTAAAVVAILGSVFLLLCFSIALLALLLVKLPGNAPELPPSVRTFGLATQGFMICLSLFGLATGIGLLYLRKWARISILIWGGLSVFFGVIGIPIAFLMPFSPTPNAPNLPAESMQAFRWIILIIYGVPLLIGIWWLILFNRKTVKAQFAGQGESADQGLPRKPACPLPISVLAWFYVASVLNLVFLPLLPFHIPLFVFGYVLPGSAGRIALIITSLAFAVAGVGLLKLKPWSYSLTIGLQLFWFASGVVSALTPNYGAVMDSYMKEVQASYHLPETYSSPFNFAQHFGWIMVGGLVFAGAILGLLFYYRPRFLEAASRAAAAT

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