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 Ga0209535_1095399

Scaffold Ga0209535_1095399


Overview

Basic Information
Taxon OID3300025120 Open in IMG/M
Scaffold IDGa0209535_1095399 Open in IMG/M
Source Dataset NameMarine viral communities from the Pacific Ocean - LP-28 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1081
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Oceanic → Unclassified → Marine → Marine Viral Communities From The Subarctic Pacific Ocean And The Gulf Of Mexico

Source Dataset Sampling Location
Location NamePacific Ocean
CoordinatesLat. (o)48.9699Long. (o)-130.6666Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002733Metagenome / Metatranscriptome534Y
F011124Metagenome / Metatranscriptome295Y
F074150Metagenome / Metatranscriptome120N

Sequences

Protein IDFamilyRBSSequence
Ga0209535_10953992F002733AGGAGMIKGNTVWLQLTRTEANALMVMLDGEMENRFQFEGLDLKEWEQLDLEAYKILAFHKYKTWYMENCGD
Ga0209535_10953994F011124AGGAGMFDPDKTYGTLVWDMTIAVWDDDADDYVRNEDGSIKLFDIPNYDYSYICDGIDVDDLHERDEGVLTHELLAL
Ga0209535_10953995F074150AGGAGMPKYEVTRSYTVACVATVEAESVDKAMRMAFESDLIWKEYDGDYHAEVDVEEIDDV
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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