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 JGI25381J37097_1001017

Scaffold JGI25381J37097_1001017


Overview

Basic Information
Taxon OID3300002557 Open in IMG/M
Scaffold IDJGI25381J37097_1001017 Open in IMG/M
Source Dataset NameGrasslands soil microbial communities from the Angelo Coastal Reserve, California, USA - Sample 08_20_2013_1_20cm
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4319
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (66.67%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Grasslands → Grasslands Soil → Grasslands Soil Microbial Communities From The Angelo Coastal Reserve, California, Usa

Source Dataset Sampling Location
Location NameAngelo Coastal Reserve, California, USA
CoordinatesLat. (o)39.718176Long. (o)-123.652732Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F012762Metagenome277Y
F013280Metagenome / Metatranscriptome272Y

Sequences

Protein IDFamilyRBSSequence
JGI25381J37097_10010172F012762GAGLPTSYQYDPALGTIDSFPTILHGRASFSFDINPESLQKALVSALASLRANPKSREITLTDRDGYLNGQLTFRVGIGNGDSFDILDSREEERVMNRIENRGPFKMLDLVFQLHYSVSDGRRHRVHEDHYILRLVFQPGRVEILVHHLKGIRRVEPDELIRLIIQELNVELTRDRYSQIGLEAVDIN*
JGI25381J37097_10010175F013280N/ALNAVRLLFWSAVAYALLLVLVRGVFPSESAPTISLTGIPLIVIVVMIARDLTRRSTSPTVRRAIATTAGFRGNPVQFLSGQFRVAANASNSYFENVVRARLRELLTTKVALEAGLENETVRRILSDPRDGPELLEDETLYRMLYGPTPQGGLARLNLIRDAIDLIGAWKG*
 ⦗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.