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 Ga0224906_1005884

Scaffold Ga0224906_1005884


Overview

Basic Information
Taxon OID3300022074 Open in IMG/M
Scaffold IDGa0224906_1005884 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 56 SPOT_SRF_2014-09-10 (v2)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5118
Total Scaffold Genes14 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)14 (100.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Strait → Unclassified → Seawater → Marine Viral Communities From The Oligotrophic San Pedro Time Series (Spot) Site, San Pedro Channel, Ca, Usa

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)33.55Long. (o)-118.4Alt. (m)Depth (m)5
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000896Metagenome / Metatranscriptome845Y
F007531Metagenome / Metatranscriptome349Y
F037814Metagenome / Metatranscriptome167N

Sequences

Protein IDFamilyRBSSequence
Ga0224906_100588410F037814AGGGGGMEISLAISIMMLLVIILSFGYMLKELKECQKIIKKMQRRSRKYMREVVSND
Ga0224906_10058846F000896AGGAGMTNKINMVINLSILALLIYLSVAVKKLEDKVFPDPNIMIPLMGYDSSKQELEYNIKEFLNNVLTQAINEQENQ
Ga0224906_10058849F007531AGGAGMLKTIEKRILDFSKDTGLTERLEMVHGTLYVKLHEEKECDLFHKVLRTFYKDQINNEGGVNMYAVGDEFAFDFVPEDREAPVFSDEDYSGKEGMMPSDIDKGIWSEFAEEELLNNMPDEVDTELQLEIENMRGK
 ⦗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.