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 Ga0244775_10019411

Scaffold Ga0244775_10019411


Overview

Basic Information
Taxon OID3300024346 Open in IMG/M
Scaffold IDGa0244775_10019411 Open in IMG/M
Source Dataset NameWhole water sample coassembly
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6225
Total Scaffold Genes17 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (17.65%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (20.00%)
Associated Families5

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameUSA: Columbia River Estuary
CoordinatesLat. (o)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004306Metagenome / Metatranscriptome444Y
F025742Metagenome / Metatranscriptome200N
F038092Metagenome166Y
F039484Metagenome163N
F103248Metagenome / Metatranscriptome101Y

Sequences

Protein IDFamilyRBSSequence
Ga0244775_1001941115F004306N/AMSLAQRELGETFRKDNNKQMSNKHIEIIRFDNAKIHIKEYLNGEQLATTLTYQPAIIKMIGARLLVINPDNNEEYYDCRYDDCTIKRING
Ga0244775_100194113F103248N/AMITIKNIDKIINITSPLPYKWYISAGDELPDDLYGFSVYINGKIENVFYLNRESRYMSGRNEPVYRLYKDFDQTKINRWLSRHQITPYFIKKAINDMLNE
Ga0244775_100194114F038092N/AMPHIPIPPKPTMTTQQMIQQLQRINTMPQQVNTLRASYVVDAQQIRDIAEAQAKATMIEMMKQETEKRKQTILTIENIDKIKGHKYSEWLTVGGVMESDFYYEFTLLDEQHNQVETILLHRKQTSDKRYIMEYNNQTLWITKDRLSTIDGIIECMREI
Ga0244775_100194115F025742N/AMLTIKNEDKLTGTALTGAGPDGPIAWHVSGMGGSLHHYIIYLTRDDNGWERKVTLDRYHSVNQTGKQYKLECGTEHMHLDKTSMDKIEIFTNYLEYFI
Ga0244775_100194116F039484GAGGMIIKNPDKLLKQWIPGTNGDIWFVDDVSVTMDSHGTAYIFRCITEWPVKTSPNQQYYHSTRRIHTVVTLRLTETDYGKNNVYSVSTDEKVWRGYCKDIDTMDKFILVLADLLPNTNSL
 ⦗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.