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 Ga0181411_1000041

Scaffold Ga0181411_1000041


Overview

Basic Information
Taxon OID3300017755 Open in IMG/M
Scaffold IDGa0181411_1000041 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 34 SPOT_SRF_2012-07-09
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)35388
Total Scaffold Genes58 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)53 (91.38%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
Not Available(Source: )

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
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000256Metagenome / Metatranscriptome1448Y
F027482Metagenome194N
F039583Metagenome163N

Sequences

Protein IDFamilyRBSSequence
Ga0181411_100004118F027482AGGMDKKDLEKWLDRMFAVGKAVTYPCGHFVGREWCRSFNEKLASCLTLAELEGFANRRRFDPNLPRWTAAERAEILKRKIKLEKGKRK
Ga0181411_100004121F039583AGGAGMTSEKQTFQNQANRMAARKKFLDALQEDQRDALQKSFDAIQNCVWMLNECNDLYVSDVAKLQSAYHELQNIFFEIEPSDWQLERFAEHDVKWPPAPRGRPAKSD
Ga0181411_100004155F000256AGGMSDGVSGIGSAPFNVGSDIHQQTQTRERIEAHLAEQMVAKQHRANHSHLEALAKQRFDLQETYDRFGRKTNADRPQGTNINIEV
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