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 JGI25405J52794_10001087

Scaffold JGI25405J52794_10001087


Overview

Basic Information
Taxon OID3300003911 Open in IMG/M
Scaffold IDJGI25405J52794_10001087 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)4349
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (66.67%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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?
F016700Metagenome / Metatranscriptome245Y
F046708Metagenome / Metatranscriptome151Y
F088453Metagenome109N

Sequences

Protein IDFamilyRBSSequence
JGI25405J52794_100010871F046708AGGAGGMKIKNSLALFSLFVFFTGCATIQSGGDVQYGRQALLGGNNEAALGYFYSAAQRDPNYVYATGSSPKQSVW
JGI25405J52794_100010876F088453GAGMNEHNYGTHLIKFKADRTPDENYWIGKAHVQYNDGRTLRCFEVHGPAETFNSKEAAEEHVLALAKTLIDKFI*
JGI25405J52794_100010877F016700GGAGGMNSIEATMVALLAGLAVITEGHAEDYYFYKGPKGELVISNKEPPPGTKIIKRVPGTTDRETPQVQEPGKTLPNVKPEDSPKPTKNK*
 ⦗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.