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 Ga0102861_1000374

Scaffold Ga0102861_1000374


Overview

Basic Information
Taxon OID3300007544 Open in IMG/M
Scaffold IDGa0102861_1000374 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1449B-3
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)10326
Total Scaffold Genes17 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)13 (76.47%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Intertidal Zone → Estuary → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameColumbia River Estuary, USA
CoordinatesLat. (o)46.2327Long. (o)-123.9168Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000722Metagenome / Metatranscriptome922Y
F061855Metagenome131N
F068840Metagenome124N

Sequences

Protein IDFamilyRBSSequence
Ga0102861_100037412F068840GAGMQLRLKATFNDGTINEVVTNLSTIVAWERKYKRKASEMASGIGVEDLAYLCYEATRAGGTTVPGTLDQFIALVKSIDVLESLDPKADPDQ*
Ga0102861_100037416F061855AGGCGGMSNYTVTSKQLLDNYAVVQTLEPTEIAIGESVTIASVAVPFNGTFVVQGLPQYLYIGIDSDGFPLYNTNVALPNQVLYRCTGTDVDRVATTTGTLTYNQVCTWVSATDVEDWLGIGTATAADATFLTLCAAASSAFCFLRRQEAGYHDSLTVLPSTAVGLGTRAYGGFLYRQRGSVTDFASFDGMVSGGSNGLSPMIKQLLGVNRAQVA*
Ga0102861_10003742F000722N/AMTDTPYPEPGISQETRQAMYPDTYSDKYNKVFKQFVDDILTVKPVAPIDRLDDHAILLDELVLMYDAHMTIGGEQNRFNASVIKAAINVIRAL*
 ⦗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.