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 Ga0247774_1000602

Scaffold Ga0247774_1000602


Overview

Basic Information
Taxon OID3300022903 Open in IMG/M
Scaffold IDGa0247774_1000602 Open in IMG/M
Source Dataset NamePlant litter microbial communities from Arlington Agricultural Research Station in Wisconsin, United States - UWRJ-L001-104B-6
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)17921
Total Scaffold Genes22 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)16 (72.73%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Plant Litter → Unclassified → Unclassified → Plant Litter → Soil Microbial Communities From Arlington Agricultural Research Station In Wisconsin And Kellogg Biological Station In Michigan, Replicating The Bioenergy Cropping Systems Trials (Bcsts)

Source Dataset Sampling Location
Location NameUSA: Wisconsin
CoordinatesLat. (o)43.3Long. (o)-89.38Alt. (m)Depth (m)0
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F058015Metagenome135Y
F080669Metagenome115Y
F098799Metagenome / Metatranscriptome103Y

Sequences

Protein IDFamilyRBSSequence
Ga0247774_10006021F098799N/AVRTTRDNPTPDDLKNTLAAVFSKWFEGTVLDPALVFKGTTRSATADLIKLERISKDRLSLDNPARRREELPGVGPTVAPGEVVWLDVTFAYRGQQTDMPWPVRTGAAVQLTSSAQCPIGADWMLDAAQTPTANAPPEQASSDKAGEVVSNAAEGVAGGLFNFLWLPLAALGAVALLVWQARRGS
Ga0247774_10006027F080669GAGGMNRTLVVMSSNREIEKQTRNTLQKLASLGAMLLLEAGSADVAFARCRALSWACERLREYPDRDIVLMLDDDMEVPAETAQALADKARELGRACSAVYATLTAKVAATRWADHPGLWLVGLGCVAIPRALLLELEQRSETFELDDRSYRAFTWSGPEKGSWVAEDFRLSINLGGVHLCPLAVGHIKKGALWPDDETLEQLAATPSFESVPQRKPSGAPLPSFHQQQPNRGH
Ga0247774_10006029F058015GAGGMGGSQAIPSVPDVIGPNGFGAPAALVLTLDAPKEALHYRANLALDVRNTATSPGGEVVLYLDVSIDGGTTYTNRAKNVHAINSTITDQVEARQMQVWLPLVLGSALGISDATPPPSIKLRARANQVVGSEAVQVNSQSISGGVTPVSELNGTIHMELEECL
 ⦗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.