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 Ga0224905_100022

Scaffold Ga0224905_100022


Overview

Basic Information
Taxon OID3300022058 Open in IMG/M
Scaffold IDGa0224905_100022 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 49 SPOT_SRF_2013-12-23 (v2)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2393
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

Taxonomy
All Organisms → Viruses → unclassified viruses → Virus 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)5
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000613Metagenome / Metatranscriptome985Y
F002192Metagenome / Metatranscriptome585Y
F021434Metagenome / Metatranscriptome219Y

Sequences

Protein IDFamilyRBSSequence
Ga0224905_1000222F002192N/AMHQVLLYSSLSIAILALFFALYAGVRVGQMIQASKDLDWTAVANLTGDIASTKKTIQTLNNRINGMHSPKLADQELMLQLLQNKEKPRPNGHMTNSVGKWV
Ga0224905_1000224F000613AGGAGMPIVKKKVSVASGATSDQILSGTTYEYVDQGTRIVVAAAVDTAGTAAADTTMDFTVNNAEFAKDASVSTLVTGQPFGWNNTGYVMSDMVTTGAVRNRPVIQFKNGTSGTRTIDVAVFIGN
Ga0224905_1000225F021434N/ADVGRNILGPIGNIFSSPALTPFITPQSQGQPAQPSQGGQMGQESSRSGTQEAFIGGLPNVLGQAARFLRTPGGQIGTGLISGIGASMLGGSTPGMRITRKMKSQYRSVLNLAGGNYQLAADMIGVSDDMFIAVMLKRFRNDGPVVTKAALRKTKTTVRRLKSMCDMYDSLRPTATRRRAPMKRATTTLIKN

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