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 JGI12421J11937_10002483

Scaffold JGI12421J11937_10002483


Overview

Basic Information
Taxon OID3300000756 Open in IMG/M
Scaffold IDJGI12421J11937_10002483 Open in IMG/M
Source Dataset NameFreshwater microbial communities from dead zone in Lake Erie, Canada - CCB hypolimnion July 2011
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)7424
Total Scaffold Genes24 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)19 (79.17%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (71.43%)
Associated Families7

Taxonomy
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Hypolimnion → Freshwater And Sediment → Freshwater And Sediment Microbial Communities From A Dead Zone In Lake Erie, Usa

Source Dataset Sampling Location
Location NameLake Erie, Canada
CoordinatesLat. (o)41.77Long. (o)-81.73Alt. (m)Depth (m)20
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001562Metagenome / Metatranscriptome670Y
F003379Metagenome / Metatranscriptome490Y
F006744Metagenome / Metatranscriptome365Y
F009143Metagenome / Metatranscriptome322Y
F092052Metagenome / Metatranscriptome107Y
F093318Metagenome / Metatranscriptome106Y
F093873Metagenome / Metatranscriptome106N

Sequences

Protein IDFamilyRBSSequence
JGI12421J11937_1000248311F093873AGGAMFSLNYTVGLGSTTLLVPSEEYANEYLDLVSQTRVIDTVTLTELPNYKPSKRVVIATTRSWE*
JGI12421J11937_1000248314F009143GAGGMMTKWDTIQADVADAYIYIDEEEAYNKALEEGNISLIDVNDFDEDELSKSLTLDWND*
JGI12421J11937_1000248318F001562N/AMKSQFELDLEIKESFIDLLNDVYPTVKIGYSTFTPAEILECCDPIAFSIGLIEHEDYLAEMENE*
JGI12421J11937_1000248321F006744AGGMNLDEFKAHVLATRQASKAEALSVLSATITIQPNERENLK*
JGI12421J11937_100024834F093318AGTAGGMQIQYVSKYIALSEEGLVPRLECPMDQGPLLPNQDGEDRVFTYCLSCEYKKFLGTKDYEDIVRAVENAR*
JGI12421J11937_100024835F092052GGCGGMLDECKNGKCTCEQEENFFHVKVIPQNSAKISAAGEESFSSYEFEATTLIEKDSMGREIFWNDMGRP*
JGI12421J11937_100024837F003379N/AMLIATAILSGVALSKFLKWAGQMEIFDFDLDEDIDNENL*
 ⦗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.