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_10004354

Scaffold Ga0222715_10004354


Overview

Basic Information
Taxon OID3300021960 Open in IMG/M
Scaffold IDGa0222715_10004354 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)12319
Total Scaffold Genes17 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)13 (76.47%)
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?
F013882Metagenome267Y
F020893Metagenome221Y
F040084Metagenome162N
F049592Metagenome146N

Sequences

Protein IDFamilyRBSSequence
Ga0222715_1000435414F020893GGAMPTEIYVALISAVAIVSAAVLPAVLIERARRENADDHAYVRKILTRVERKIDNHLEDHDNGTTRRNPAKNKQVG
Ga0222715_1000435415F040084GGAGGMALRDEIQPKINKLAELAKWLDDQPNGEEWYELIYDEQYSNQAVAALLKKHGFVCDFNVVHRFRAKHVAK
Ga0222715_1000435417F049592GAGMAGLDKPLVLVVWHDAHTLDNDHWYDEVDLKDTPCVVHSVGYRISKPNARHLCLAQSITDEQGSDNVLFIPARMVRKVIKLQIPHKRRK
Ga0222715_100043548F013882GAGGVAASASVTIVGIKDTLRKLQKLEPEMAKEIKRDFKQIVDPIVKDARVQVVRLPLSGFSRQWKAGRLTPWAQNAVSKSIIARFSNRRRGNSLAVFSVTMKSPIGTVFDMAGRSNANRLGAVLSTLYGAPSRLMWPSYEKNAERVNDNLRKLTDRITDATNRRLAR
 ⦗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.