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 Ga0181400_1000425

Scaffold Ga0181400_1000425


Overview

Basic Information
Taxon OID3300017752 Open in IMG/M
Scaffold IDGa0181400_1000425 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 23 SPOT_SRF_2011-06-22
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)18292
Total Scaffold Genes32 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)11 (34.38%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Associated Families4

Taxonomy
All Organisms → Viruses → unclassified viruses → unclassified DNA viruses → unclassified dsDNA viruses → Prokaryotic dsDNA virus sp.(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Strait → Unclassified → Seawater → Marine Viral Communities From The Oligotrophic San Pedro Time Series (Spot) Site, San Pedro Channel, Ca, Usa

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)33.55Long. (o)-118.4Alt. (m)Depth (m)5
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F009856Metagenome / Metatranscriptome312Y
F024541Metagenome / Metatranscriptome205N
F048232Metagenome148N
F063642Metagenome129N

Sequences

Protein IDFamilyRBSSequence
Ga0181400_100042518F024541N/AMEFFDMIISQYGSVHRCAKKLGTNREQLLRQIRTGNAQVLDAIADNCRLSRQEVKWEFRYHKENT
Ga0181400_100042521F063642N/AMEYTCTQLFDEVIQLATPDCIKRRDMSLVRKLKDLQNYTQRLEKIAEDALDILKEEKA
Ga0181400_100042524F048232GGAMPNSETLPYEERVSRIMFLREHRRNLLQAYCKDDVTMKEKDKLRLEIARVQKALKKLDPDGMFPP
Ga0181400_100042525F009856N/AMKYWFEVEDAQRWGLSAAAVLAHLKYWIARNTEAGEDPCMTQSIARMQGHLPFLTFDQIRRALSKLEKGDAIYRKANGFDRRHTYCLAELPQASGEIATTKRQECHNEERDLPRVHIETNTSKRTRENAREELEYQRPSEQEVVEYLRDIGGSDVADQLGQEFHTHYESTGWIVSGTPMAKWKPKARSWLSRMRNKQSNERRKGFNPAGFTPDGLKDFIDNG
 ⦗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.