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_1000403

Scaffold JGI25381J37097_1000403


Overview

Basic Information
Taxon OID3300002557 Open in IMG/M
Scaffold IDJGI25381J37097_1000403 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)5867
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (55.56%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

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?
F009133Metagenome322Y
F022166Metagenome215Y
F035230Metagenome / Metatranscriptome172N

Sequences

Protein IDFamilyRBSSequence
JGI25381J37097_10004031F035230N/AMSSVLQVKMINEGDDLKIVVPRSYFQRLGLERGDTLLVTVEEERTRAKRKNGRARVH
JGI25381J37097_10004034F022166AGAAGGLTTKLPPVNFLGVIAGVLSLVSILFPWWGVTATGFGLSTSSTWGFFGGPSHNPDINNASGFSNTITTYSPIILALVLLSTALAIAGSFTPRVRILAGSLMTSVAALVGYAELIGYTASNNCQGTGCITQPTGSETIFGVTRTWGFQQGFYIFTAATILVLVGMVFHQTLTKHRSKGATSNQKA*
JGI25381J37097_10004039F009133GAGMSSSVQNLLSKNLDDLYEELGRSIIAPELPRTGSVTRQNAVQRGRFFVSGSLEKLRAKICVDWRFCSKRGEYGDFQSLAYAIAPLVSGVVGVPATTAMIVAIILIKSGLEKLCNCP*
 ⦗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.