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 Ga0244777_10001207

Scaffold Ga0244777_10001207


Overview

Basic Information
Taxon OID3300024343 Open in IMG/M
Scaffold IDGa0244777_10001207 Open in IMG/M
Source Dataset NameCombined assembly of estuarine microbial communities from Columbia River, Washington, USA >3um size fraction
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)18819
Total Scaffold Genes26 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)21 (80.77%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Intertidal Zone → Estuary → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameColumbia River Estuary, USA
CoordinatesLat. (o)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F020544Metagenome / Metatranscriptome223Y
F048918Metagenome / Metatranscriptome147N
F095558Metagenome / Metatranscriptome105Y

Sequences

Protein IDFamilyRBSSequence
Ga0244777_1000120725F095558AGGAMVDYKGSNVETLTHSKKHMLDRANKPYTALNDGPFRTSLDKMDGVFRKEVISYRVHNGFLYKETAVRHFSDGDYNDTVTTETLHAVE
Ga0244777_100012073F020544N/AMRAYILRINSPVSLEYAKITADSCDKIDLDWEYFDGWYDITGRAAWCQTGIKMKFYEPPLTIDSMTPAQKANACSAGHGAIWKKIADGPDEIGIVLEHDALMYYKPSIPIQDNTIVVLGYKVTDPSRYRAFDSIREQPKQLISIDGHEGAHAYMMTKKTAQLLVDEIEEHGILGAVDNAYFIRGQRRTKVPLAIMSPTPALGWLRKSTIWLDSADRNYKFIPSFENYYK
Ga0244777_100012079F048918AGGAMSEIHYLKRTATEAVVKIYVTDSAGDTVDILLSNLVHPSQSVNGAVVTIKEIYWGCKTNKHIDISRWDGSTAHGHYYFVNSGSHEYKGFTDNVYSNRDIRVVGDGPFHVIMKLTKEAGYN
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