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 Ga0222712_10056254

Scaffold Ga0222712_10056254


Overview

Basic Information
Taxon OID3300021963 Open in IMG/M
Scaffold IDGa0222712_10056254 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_657D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2907
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (54.55%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine Water → Estuarine Microbial Communities From The San Francisco Bay-Delta (Sfbd), California, United States

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)38.1516Long. (o)-121.6883Alt. (m)Depth (m)10
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F015581Metagenome / Metatranscriptome253Y
F024548Metagenome / Metatranscriptome205Y
F044443Metagenome / Metatranscriptome154N

Sequences

Protein IDFamilyRBSSequence
Ga0222712_100562543F015581AGGAGVANVLKNMKNNIEKPNAFVFKAFIDNEYRLCVCPRIDNKWSEADIVYVKEDLYKEFDEVLDNKFFSVVFVGYVADESGNGFNIKNVNSHYIKSDTTVAEEMYNEGTFFNTIEKGYQHFYEQSITSEREGVSSQTSEQENL
Ga0222712_100562546F024548AGGAGMKSADNIVELTDKDIKKYTKLKEGSKIEEGDLVNVYDTTYAEISKGNILCKHTVNKFNTILRVK
Ga0222712_100562547F044443N/AMLNRITNLFKYKLYTALTYLTVVSFIYLIIASIVFAFRHPWATDIERFIHIGDALMFNKISYKEMRGEYEER
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