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 Ga0222718_10013851

Scaffold Ga0222718_10013851


Overview

Basic Information
Taxon OID3300021958 Open in IMG/M
Scaffold IDGa0222718_10013851 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_27D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5836
Total Scaffold Genes17 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)14 (82.35%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
Not Available(Source: )

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)37.6183Long. (o)-122.2916Alt. (m)Depth (m)12
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004343Metagenome / Metatranscriptome442Y
F008882Metagenome / Metatranscriptome326N
F013295Metagenome272N
F024204Metagenome207N
F032075Metagenome / Metatranscriptome181Y

Sequences

Protein IDFamilyRBSSequence
Ga0222718_1001385110F008882GAGGMSIKRYNFNKPKINRQELELLNWFLAHTNDNPLINAEALELFKANGYSAKNYQDLVNKVKTILKTYKTKGEL
Ga0222718_1001385113F032075AGGAGMSKLHHTKYKENYKNYILDCIDSEDDLINQELTRNQKIQYLFNRFNSEYGWNIKRVGKYKAMEEWLSGLAINIPYTYFDIIELAQEMGSIDSNPSEALKDRVCENYFSFMAQMVLLLEDELKEVA
Ga0222718_100138515F004343GGAGMTQHKDMIEEARRLLNSERENIPSMSKNFKKDYWLLTYPCGKIVKTYEDKRKNDVVIQESYQ
Ga0222718_100138518F013295AGGGGGMKINNLTPKQFARREIIKYLRDLFDNPKKYIQDFDSYTHRQQEEILRFISLDEHRIDKLLNLPMGET
Ga0222718_100138519F024204AGGGGGMKNYSYLEILEDGIEVCASCGGANINANRNIDDQDNTKPQDHCFNCDYAEGINLCMPNDLYFYQEAKETLNKINKGEL

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