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_1008197

Scaffold Ga0224906_1008197


Overview

Basic Information
Taxon OID3300022074 Open in IMG/M
Scaffold IDGa0224906_1008197 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)4177
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (77.78%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

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?
F028039Metagenome / Metatranscriptome193Y
F041493Metagenome / Metatranscriptome160Y
F042628Metagenome158Y
F086164Metagenome / Metatranscriptome111N

Sequences

Protein IDFamilyRBSSequence
Ga0224906_10081974F041493AGGAGLTTKQQDYFIKEIDNNEEHLYTTIFDSVSGDPFRVKTDRIGHYLSKVKRKSKLQGDKLLFSDEYVKAFVKTKEEIIGSPSSGKIDRVAPVSQVKAGKRRRGRRGKKK
Ga0224906_10081975F028039AGGAGMTTLLDRWETIIKGIKFEKRWNDILEKHLKDNNLKKLPEPDWSDDPTMAYIYLPTRSLNGDAVRLDRSKARMFPESIVGYLEKGGLMKLPAKVEASKTEEQLPKMETEKPKPQKIKLPKIGE
Ga0224906_10081977F086164N/ALLEGENMAFGHEKLAVDATVRSLTVPVDVNFAQVTVETAAIRYRLDGTDPATAVGVLISAGDSFCIYGVDTLRNIKMVEATSTDSVINVSYGTANNGIHGVIITGTA
Ga0224906_10081978F042628AGGAMGKYNKSSKNNIFKEEPEISVSEHTVEKNGRKMKMVIPEGKIGYGDTESHAQMAADLATKHSDDTKAGQRVYEEVRRHRDSRNRGTTVEQNKINLAKRKMAGRMPVIQTFNITDPVTGQVIAQEFLFMKTDRSGLTRPLKIRVDVQSGKTTEVPI
 ⦗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.