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 Ga0222713_10039684

Scaffold Ga0222713_10039684


Overview

Basic Information
Taxon OID3300021962 Open in IMG/M
Scaffold IDGa0222713_10039684 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_649D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3696
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (75.00%)
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 → environmental samples → uncultured Caudovirales phage(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)38.06Long. (o)-121.8Alt. (m)Depth (m)12
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001176Metagenome / Metatranscriptome756Y
F001280Metagenome / Metatranscriptome732Y
F073565Metagenome / Metatranscriptome120Y
F105019Metagenome / Metatranscriptome100Y

Sequences

Protein IDFamilyRBSSequence
Ga0222713_100396842F001176GGAMDTPPNSSPAGAVTSQEATRKNPTQGKFKSGITQRPPTKIDTNKHGIRRETSIVPKKTRPKKV
Ga0222713_100396843F001280GGCGGMCVECGCEAFGSEKGMDNIPGGILDVSRDGEAGLTLNMTATPEQTRQFINE
Ga0222713_100396844F073565AGGAGMDGINLTGFNDVKPVAQHTIGEQYAADPAAAFPATDKSSQDGSGLGNGGK
Ga0222713_100396845F105019AGAAGMAKHHDKIAKSLEIRRSNWKNPAGKAPGSMNKKKTGYNRVKANNAK
 ⦗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.