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_1016375

Scaffold Ga0209535_1016375


Overview

Basic Information
Taxon OID3300025120 Open in IMG/M
Scaffold IDGa0209535_1016375 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)3898
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (72.73%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

Taxonomy
Not Available(Source: )

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
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002399Metagenome / Metatranscriptome563Y
F015990Metagenome250N
F037256Metagenome168Y
F054417Metagenome140Y
F083372Metagenome113N

Sequences

Protein IDFamilyRBSSequence
Ga0209535_10163751F002399N/AMGATMKTKIHKSIIGQLRKKYGLKDNTPIHKVEIAMSPKDWKAFSTALTFPNGKPTQREK
Ga0209535_10163752F037256AGGMMSNKKEYIFSNTFTTTEETEVLANSYDEAVDIFLSGGGITHEVDTSGGNWECIQEPTDDEEQD
Ga0209535_10163756F054417AGGAGMSKFNKQKTIDKIIDDFGNCRMNSHWFPKSETQIEWSSHQEVYLILHQDKTWDYAEPKHLDMYVENLKDQDLKEYAKEQ
Ga0209535_10163757F083372AGGAGMQQYKISYPRAEFCYAKHIRDNLKHEGEIIYPHQPSSRLLEDGSWLLLTITGERLGTVSPNGTVRLT
Ga0209535_10163759F015990GGAGMGKGSGRRIEDINKIRNNWDSIFKKRDKKQITKVIIEFEMPGYPSIDEIRNYVEKLHKEDKLVFLTTTTNA
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