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 Ga0208091_1001977

Scaffold Ga0208091_1001977


Overview

Basic Information
Taxon OID3300020506 Open in IMG/M
Scaffold IDGa0208091_1001977 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 26OCT2012 deep hole epilimnion (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3141
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (42.86%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Epilimnion → Freshwater → Freshwater Microbial Communities From Lake Mendota And Trout Bog Lake, Wisconsin, Usa

Source Dataset Sampling Location
Location NameLake Mendota, Madison, Wisconsin, USA
CoordinatesLat. (o)43.098333Long. (o)-89.405278Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F014838Metagenome / Metatranscriptome259Y
F020529Metagenome / Metatranscriptome223Y
F022636Metagenome / Metatranscriptome213N
F041152Metagenome / Metatranscriptome160N

Sequences

Protein IDFamilyRBSSequence
Ga0208091_10019771F041152GAGMNIVDYIVKNWDTLPKSKFDDDHIVIFKEIENWDGGYGHHSYEGVGVDKDGNVTWCYSSGCSCSGGPSLETKKDLKVFVVNDGIDLNVDPSTINFNSLQVEFDSY
Ga0208091_10019773F020529AGGAMFNNKNIVKYCAKYFVLMAVGAYIFNASVTLINQKSDVANLVGSALFAGLFVGTMVILKSDVTKLVKNINKTENKENE
Ga0208091_10019774F022636N/AMSTYRRATLQDLAKLGYVPNTQKYKEHIEFARKYYPPEATTMVMSIHSEYNDCTYDNSFQYIIVYDMDGNELLPLKKTAKECREHWTTEYLPIPNTKDGNYGASESDEPLDDVVIPLTSEVPELYIKES
Ga0208091_10019775F014838N/AMKESLKKIEELKNQLNTVKSELQKEFKAELKKIFVDNPTLDSVEMYINNHEFNDGGATSFYIGYEDLKIVVEGEEVEREWDNKTKEYVENPVLESLIELFGDVHCIHEDLYGDEYEHLSITREEVLKF
 ⦗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.