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 Ga0137409_10008996

Scaffold Ga0137409_10008996


Overview

Basic Information
Taxon OID3300015245 Open in IMG/M
Scaffold IDGa0137409_10008996 Open in IMG/M
Source Dataset NameVadose zone soil fungal communities from Angelo Coast Range Reserve, California, USA - CZODoug1_16fungal (Hybrid Assembly)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)10184
Total Scaffold Genes17 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)13 (76.47%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Archaea(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?
F007411Metagenome / Metatranscriptome351N
F018144Metagenome / Metatranscriptome236N
F068704Metagenome124Y

Sequences

Protein IDFamilyRBSSequence
Ga0137409_100089961F068704GAGMVELPELTPEHFEILVMRELRKIGLEVSELRIHRRSAVPEPERGYLLELKGVVRGAGWQR
Ga0137409_100089963F018144GGAMKTIKNIRRSIKDKKGINTILASLLMVVIVVVAAVMVYAWSTGLLSSLLVQNPVPKETLNYDSFAYGPTSNITIYIRNSGSATVNLQTYYVKDNSGNQYTSPSTWTFGPIQPNGVNATLIKIGSLCSPACTYSGSGTGFSFVNGNSYTITVVTTRNNQFTWSLTK*
Ga0137409_100089964F007411GAGGMSLVKWARKTVDRNRRSRKAISTIMANLTMLIIVVSLSSLLFIWAVSSFGAYQGGAGYWFSSRSVANQERMSVEGAYFYAPSNGLNYALVYVRNVGTIPFTIVSVYINSTLYNSPATFPALQVNVSQVAPICPSTNGICGPSGGINLHFTQPNLGPGDTQTITIATQRGTVITTTWVS*
 ⦗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.