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 Ga0222715_10014032

Scaffold Ga0222715_10014032


Overview

Basic Information
Taxon OID3300021960 Open in IMG/M
Scaffold IDGa0222715_10014032 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_9D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6233
Total Scaffold Genes18 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)13 (72.22%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine Water → Estuarine Microbial Communities From The San Francisco Bay-Delta (Sfbd), California, United States

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)38.0566Long. (o)-122.185Alt. (m)Depth (m)29
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002197Metagenome / Metatranscriptome584Y
F002907Metagenome / Metatranscriptome521Y
F030378Metagenome / Metatranscriptome185Y
F046343Metagenome / Metatranscriptome151Y

Sequences

Protein IDFamilyRBSSequence
Ga0222715_1001403213F002197GGAMYTIKVLAPFLLQVCATEFLSGQGDYCVVDNSKPQVVKYYEPGKSCYANGIFYPKCEDRL
Ga0222715_1001403214F030378AGGAMTSNPLSSDFSYKKYSLEQLDNWVNDAVNCEDLTPQDIYDTIIKCVGESVEYHKKYLTKSVELLSLLKGNRPVDFDYTEISEPYSGWEEHYYPEEYSKVLNEVDAISKQYTEEELNAMCDAVEDKEKCREYNLREAEYYTKRAELDAQWVEGRNLSKVKTYDEMIAAGWSMTDDGFWIKD
Ga0222715_1001403217F002907AGTAGGVKQNPYWFFEKWGIEQPSPLQVLIEKVELLEKRIQTLEEENVSQSNALYECWNSLDARIDILAEKYRTE
Ga0222715_100140329F046343GGAGLGLSSTIKNCNPIPKKSLSILDIKLASANIGTHQKTPMTLPKTSTTTLTNEEWSELVALKEAITYRPASVSAQKMEKFAELMVRSLEGKQSNCPQL
 ⦗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.