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 Ga0115104_10472729

Scaffold Ga0115104_10472729


Overview

Basic Information
Taxon OID3300009677 Open in IMG/M
Scaffold IDGa0115104_10472729 Open in IMG/M
Source Dataset NameMarine eukaryotic communities from Pacific Ocean to study complex ecological interactions - CN13ID_70_C50_10m_0.8um Metatranscriptome (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1836
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Marine → Marine Eukaryotic Communities From Various Locations To Study Complex Ecological Interactions

Source Dataset Sampling Location
Location NamePacific Ocean
CoordinatesLat. (o)36.1275Long. (o)-123.299Alt. (m)Depth (m)10
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001478Metagenome / Metatranscriptome687Y
F031121Metagenome / Metatranscriptome183Y
F031514Metagenome / Metatranscriptome182Y
F085742Metagenome / Metatranscriptome111Y

Sequences

Protein IDFamilyRBSSequence
Ga0115104_104727292F031514GGAMNQMWDVVYVDEWKGEPGKGELNEDFGLYVERDFHVVSQLPGNRHLDLWKTRSMIIKTDVGTVTQKFYFHQQSLTIRARANNQSWDIKNAGKTNEMQIWSTNSQWY*
Ga0115104_104727293F085742N/AMQVWSTNSGWFQVFKYGNGQFTNWSNNKVLDVTGAKDEEGRAVGVNGNNGGKHQKWRVLYVDQAEKNRDKGYNKDFGFHINRPFYLRSRLPMKRIAECHGANNVWLKRWRKNATAQQWYFDEVSKTIKNNHWKSHSLDIQGNGGSTNVRCTTTNSRWW*
Ga0115104_104727294F001478GGTGGMFRNQNGFIANEKGKVIAVSGGLDNENRNLVMEQKNGQVHQRWKVVYVDEYKGEPVKGELNEKFGLYVERDFFVVSELPDHRYLDLINNRNMVIKTPNGRKTQVWYFHQQSLTIRTRLNN
Ga0115104_104727295F031121N/ALPFNRVVEMLGGANLVLKRWRNNVRQQQFWFDEVSKTVRNNYWKNYCLDIQSNGNSNNLRTTSGINSRWW*
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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