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 Ga0137408_1007680

Scaffold Ga0137408_1007680


Overview

Basic Information
Taxon OID3300019789 Open in IMG/M
Scaffold IDGa0137408_1007680 Open in IMG/M
Source Dataset NameVadose zone soil fungal communities from Angelo Coast Range Reserve, California, USA - CZOMad2_2_16fungal (PacBio error correction)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4813
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (80.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Rokubacteria → unclassified Candidatus Rokubacteria → Candidatus Rokubacteria bacterium(Source: UniRef50)

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
CoordinatesLat. (o)39.7291Long. (o)-123.6419Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F022629Metagenome / Metatranscriptome213Y
F023300Metagenome / Metatranscriptome210Y

Sequences

Protein IDFamilyRBSSequence
Ga0137408_10076803F023300AGGAGMHRFHVLMAVMSLSLVVPVGHALADGPSGGYGGAKVAQVSFIDRALNLIQLSDGMELRAPDQRMLANLKIGEWVKVDFVSDGDHVMINSIAPAQADEIPGPVPTAVGGSITNHS
Ga0137408_10076806F022629GGAGMWLDRYSAVCRECPDLVAVYEAPDDRVALLLRHTLVPLPEEFASLRRTTRNAARAAVDKLRAAGFHGGFMVLQWQSLGTAAAIMRDWPCRYEADAARRAQLVAVAERYAADERYLARQLSRRRPTPRPLGALPPFATSGELHRLQSWYDAMAPSWLSIEPLLRRALVLKTHRWVAEHILIPAADGRTTGLEIRETIAALGETLIELIPPDDRETWSVWVGLVVGDLERAMRRPSVDWNQAWARWLLLIAYSVPIPRERPAPVWPVKLTSLSALVR
 ⦗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.