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_1044561

Scaffold Ga0224906_1044561


Overview

Basic Information
Taxon OID3300022074 Open in IMG/M
Scaffold IDGa0224906_1044561 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)1447
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (87.50%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

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

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?
F008925Metagenome326Y
F012581Metagenome279N
F013187Metagenome273Y
F029779Metagenome187Y
F105326Metagenome100Y

Sequences

Protein IDFamilyRBSSequence
Ga0224906_10445612F008925AGGAGMTTKSKPKIDAVTLNLVNKLKQIDDTINEGAWEYIHLGDILRLQDAFHTAINHYDLKKKGGIGEHGIDAGKYTQFWHSDYVCHTDPEAFDPSKVEEDDE
Ga0224906_10445613F029779AGGAGMSDKEKYEELCEALVGIDATKRYTHEDILSYVYNLKDTEEKFYDNKK
Ga0224906_10445614F012581AGGAGMAKYTLYAKKVYYYRKDINAQDKKSAEKRSADYEADDNAERLFEPSGEEFYITSIEESDD
Ga0224906_10445615F013187AGGAGMPTKKIKKKPRRNTWVYIYGDEMLEIWEHFGIDFPNPDDRMKLKFVKYETKEMQDG
Ga0224906_10445617F105326GGAGMEQRRNLTPKEHWELHQGLWNILGCDMQLKYKDRTTAVYVDNKAKLKYTYSTKGFIKWFPIPKEDKI
 ⦗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.