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 Ga0208916_10011014

Scaffold Ga0208916_10011014


Overview

Basic Information
Taxon OID3300025896 Open in IMG/M
Scaffold IDGa0208916_10011014 Open in IMG/M
Source Dataset NameAqueous microbial communities from the Delaware River and Bay under freshwater to marine salinity gradient to study organic matter cycling in a time-series - DEBay_Spr_0.19_<0.8_DNA (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3521
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (81.82%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Associated Families6

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Coastal → Unclassified → Aqueous → Aqueous Microbial Communities From The Delaware River/Bay And Chesapeake Bay Under Freshwater To Marine Salinity Gradient To Study Organic Matter Cycling In A Time-Series

Source Dataset Sampling Location
Location NameUSA: Delaware Bay
CoordinatesLat. (o)39.283Long. (o)-75.3633Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002826Metagenome / Metatranscriptome527Y
F004010Metagenome / Metatranscriptome457Y
F020665Metagenome / Metatranscriptome222Y
F021063Metagenome / Metatranscriptome220N
F022371Metagenome / Metatranscriptome214Y
F037193Metagenome / Metatranscriptome168Y

Sequences

Protein IDFamilyRBSSequence
Ga0208916_1001101410F021063GGTGGVRSTQLCRGDYDDRLQQLAGEVALQAIRDLRMLRKRGMVKGMKIIKDHQGVPLNDALEYKNSHEVQKLLRDFKTGVVSWWCRASGVAIDNRTLLRKLKENDYVLPT
Ga0208916_100110142F037193GGTGGMKSKDELAMQVKKEWDEQGYRWKLSLSAGGFTSEIYCYGTAEEGYFKCVRELVDHAYQMQSV
Ga0208916_100110143F002826N/AMHTEAKARLKWAREILSIARNKLVIERDRATHGHAIDMIQIITMVDAASLVCKEVVGEE
Ga0208916_100110144F004010AGGAGGMPLGKDVSKNMSELARDNRKKGSERGAGGKPRSRQQMIAIALSAAGKSKPRKFRMRSGS
Ga0208916_100110148F020665AGGAMRKRKTGKSIKLVKVKEYEAVKILVDVDDDLFNAMADAGRQHIVKDKVACFEYALNKALLELCEELK
Ga0208916_100110149F022371AGGAMFCLLDLAGIVWVISAFILYTSLTLSAIYCAGYLIFKLIEIIRKELDR
 ⦗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.