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 Ga0081455_10000060

Scaffold Ga0081455_10000060


Overview

Basic Information
Taxon OID3300005937 Open in IMG/M
Scaffold IDGa0081455_10000060 Open in IMG/M
Source Dataset NameTabebuia heterophylla rhizosphere microbial communities from the University of Puerto Rico - S3T2R1
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)119012
Total Scaffold Genes128 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)95 (74.22%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizoplane → Epiphytes → Unclassified → Tabebuia Heterophylla Rhizosphere → Tabebuia Heterophylla Rhizosphere Microbial Communities From The University Of Puerto Rico

Source Dataset Sampling Location
Location NameUniversity of Puerto Rico, San Juan, Puerto Rico
CoordinatesLat. (o)18.402889Long. (o)-66.050054Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F008142Metagenome / Metatranscriptome338Y
F016892Metagenome / Metatranscriptome244Y
F075145Metagenome119Y
F080579Metagenome115N

Sequences

Protein IDFamilyRBSSequence
Ga0081455_10000060101F080579GAGMSSSSRSARRTVRYLALIYVVPGQREALRRYERHVLPVFKRHGGAFERIWTPVVPDAAPDPEAPDEIHLLRFDREDGLEAARRDPEMQALAELRGRVVRKAVLVRVADVPLARYFADPA*
Ga0081455_1000006092F008142AGGAGMRRYLLMLVWVLWAHEMTVVGDRLVDRGYTAIDSFETRQLCHAAMADYSALRLVRQGRVRVDFSCLPDKTDPRTRTGVG*
Ga0081455_1000006095F016892N/AMRRLTCAPSATTIGPMKWPSSRSVAVIWLLAALSLVGWLIVNLDTAGWIILTLTVGLMAFELTRRRNGQGAPPPE*
Ga0081455_1000006096F075145AGGMPDAHRRAWLIRAAIWLATLFFAAMLFVPLVREAVRRAAEQVPGGHF*
 ⦗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.