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 Ga0222712_10048224

Scaffold Ga0222712_10048224


Overview

Basic Information
Taxon OID3300021963 Open in IMG/M
Scaffold IDGa0222712_10048224 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_657D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3201
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (44.44%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
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)38.1516Long. (o)-121.6883Alt. (m)Depth (m)10
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F010688Metagenome / Metatranscriptome300Y
F014610Metagenome / Metatranscriptome261N
F031459Metagenome / Metatranscriptome182N

Sequences

Protein IDFamilyRBSSequence
Ga0222712_100482242F031459N/AMNTDTNSSSGLGLSLATAATAGAVSLLPQLTQWFQLGAAVLAFIAAAIGLYKALKK
Ga0222712_100482248F014610GGAGMPIYTFENNGQSIEHIAPMGTDSVVLDGKRWNRQPVTRFGVTGFAREAELKDKVKQGFSRMEDRQGSRFESTFSKNQIRKIWDI
Ga0222712_100482249F010688N/ARPKTATIMVIAVSPKGHHRAIGGAPSHSACGCEEADNNAPMIAIPVEALSTDMEDGQQATPEVGDEVLLDDVRGVLKKLQNGEAYVEIKSVNGMPAEYEKTGEDAMESKKPMDEKGMRKMVEEYDSEMES
 ⦗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.