NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0181403_1029152

Scaffold Ga0181403_1029152


Overview

Basic Information
Taxon OID3300017710 Open in IMG/M
Scaffold IDGa0181403_1029152 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 26 SPOT_SRF_2011-09-28
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1165
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → Viruses → unclassified viruses → Circular genetic element sp.(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)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F039389Metagenome164Y
F095250Metagenome / Metatranscriptome105N

Sequences

Protein IDFamilyRBSSequence
Ga0181403_10291522F039389AGGAGGLAFLGDFGKFFGLGSSREVLGDVGGTIGSAFGLEGAGRKAGQFIGEATSSLGGTADQPLEQSAVPTPRPDKPGAQETSRSGSQTVNIIDTARGNGMTSQANLGLLAPFLSQAGKFLSSRTGQIATGVGTGAALFGGGQDGRMRPVLTQSRRNKAKVRQLVNFMGIEGAANFLSQSSGNDVSPNDVVMLLLRTFRNDGAYITKAQVRNLRRTTNRFKSLEKQVKEATSMTKTTRRVSTPRRASTTTLIKN
Ga0181403_10291523F095250AGGAGMPLVQKTLTLAAGATSDNILANTNYEFVDGNVRLRVASAVDTAGTSATADTFLNVSVNNAEYSKD
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