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 Ga0223824_10001533

Scaffold Ga0223824_10001533


Overview

Basic Information
Taxon OID3300021254 Open in IMG/M
Scaffold IDGa0223824_10001533 Open in IMG/M
Source Dataset NameSheep rumen microbial communities from New Zealand - Tag 1494 SPADES assembly
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusDraft

Scaffold Components
Scaffold Length (bps)27591
Total Scaffold Genes63 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)60 (95.24%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Mammals → Digestive System → Foregut → Rumen → Cattle And Sheep Rumen → Cattle And Sheep Rumen Microbial Communities From New Zealand, For Comparative Studies

Source Dataset Sampling Location
Location NameNew Zealand
CoordinatesLat. (o)-42.26Long. (o)171.6Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F065312Metagenome / Metatranscriptome127Y
F086398Metagenome / Metatranscriptome110Y
F087968Metagenome / Metatranscriptome110Y

Sequences

Protein IDFamilyRBSSequence
Ga0223824_1000153340F065312AGGAGGMSKKKNSKQKTWVEVFQSERKEFPQGYCVTRIIPDKRNKKPKHKGREFDE
Ga0223824_1000153342F086398GGAGGMKEQMTYHVAVQRAERVKHIIEDVGLGQIVKEKYTRFSLEQAGRWVCITDTGITIIKDEPKEKIITMYVTTQRELVAVFGGAKKVPAYLRKKVDYNQSKYTERGKTIWRS
Ga0223824_1000153345F087968AGGAMVKITKALARKMYNNGEEVMIIPNKVRPNGMLASWTTKPADDPDADFDKLCNAIFYYNCSPETGMNLAYYAKEV
 ⦗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.