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 Ga0222718_10036361

Scaffold Ga0222718_10036361


Overview

Basic Information
Taxon OID3300021958 Open in IMG/M
Scaffold IDGa0222718_10036361 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_27D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3243
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)10 (90.91%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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

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)37.6183Long. (o)-122.2916Alt. (m)Depth (m)12
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F009303Metagenome / Metatranscriptome320Y
F022558Metagenome / Metatranscriptome214Y
F028656Metagenome / Metatranscriptome191N

Sequences

Protein IDFamilyRBSSequence
Ga0222718_1003636110F009303GAGGMLNVLKWVATATLIIGFGFFSAGYGFGWYLQILGGFLWLVAGIMMKDKPIIATNALMNTVGIIGRLLG
Ga0222718_1003636111F028656AGGAGMTHKVTLDFFFDREDDWGANYNNQDFFQYNIERLRWCLVEADHLEGNPFTGCIDLNTLEVKDLKAFDLLYSLDHKELMNMVEDKGWDWIGDDFEHMEAYLSFIMQHDRSFCYTVKGEGYKSDSDYLHIETWSIPEKFLESDALRDAY
Ga0222718_100363617F022558AGGAGMNKIKIAYCGYDVISAEHEVENVEQFADFLNNKVSSLDDAKKYVTAFADNKVEEWVDGYGDEMFWAPRSRPRKQCPHSHLFLHMKGKWHVTDDGCDWEPVDVFFKQAA
 ⦗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.