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 Ga0137358_10013132

Scaffold Ga0137358_10013132


Overview

Basic Information
Taxon OID3300012582 Open in IMG/M
Scaffold IDGa0137358_10013132 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from Angelo Coast Range Reserve, California, USA - Mad1_20_16 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5204
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (77.78%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
Not Available(Source: )

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?
F000232Metagenome / Metatranscriptome1513Y
F009833Metagenome / Metatranscriptome312Y
F079644Metagenome / Metatranscriptome115N
F098730Metagenome103Y

Sequences

Protein IDFamilyRBSSequence
Ga0137358_100131321F009833GGAGGMHSPFEILKKEPAGSFSRFEPVSDFASASIRIKELTTLSPGEYVVFDQRTHNDIAARSSFWVDPRRE*
Ga0137358_100131322F079644GGAGGMYPGYQPKPDDVFHAVGYTTRDISDNTHFHLHRISDRVRMENENLWRQLGPLVHAMQSGKVKREFVEVLSVDPFLGNYEMPYTGPHREIFVSIEYLSEAAFRLCREYGIRHPDVIEKVKRADIPGNHGITLRTVHYSRI*
Ga0137358_100131325F098730N/AMECATAKILFEHYAKTAMENFEATDNLSGLVGQHGQFEEAKKYAEGTRDKCSAARMALEKHWMEHSCREGIANRS*
Ga0137358_100131326F000232GAGGMTASRKPVSIDAMKHPKQNKRVPPTHPPALAVPSYHRILVKHGLIEKTLPIPDAYEVFLQVGADPEVEKLRRKVERGSKIKRVPALYLATAMALQGMTKHELHALKLRIAKRI*
 ⦗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.