NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
x
This website uses cookies to improve user experience. By using NMPFamDB you consent to all cookies in accordance with our privacy policy. OK
Scaffold Ga0222717_10014219

Scaffold Ga0222717_10014219


Overview

Basic Information
Taxon OID3300021957 Open in IMG/M
Scaffold IDGa0222717_10014219 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_18D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5439
Total Scaffold Genes17 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)17 (100.00%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → unclassified Caudoviricetes → Roseobacter phage CRP-6(Source: UniRef50)

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)37.0966Long. (o)-122.4216Alt. (m)Depth (m)38
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F006939Metagenome / Metatranscriptome361N
F033796Metagenome / Metatranscriptome176N
F059965Metagenome / Metatranscriptome133N
F065669Metagenome / Metatranscriptome127Y
F086976Metagenome / Metatranscriptome110Y

Sequences

Protein IDFamilyRBSSequence
Ga0222717_100142191F059965GGAMPLPPSMEMELMELGILKSDTEELESIAEQTGFYALRAETIAWHNTLIVDGEV
Ga0222717_1001421913F065669AGGAGMARVVSPRVFIDTLESFFDEHGGHQRLIASAFAQYIHNNWCDYVGSYSDACGVRDILNQCYDLSIPEINVGEWSLYVHYNSTRMES
Ga0222717_100142192F006939AGAAGGMTLPLNMVTNVLSENQNKFITVKFLTKDNEERTYTGRMNVIKGLKGNERGRIASEALRKAGYITLKTKQGYKCFNVDRVLGFVAGGRRIFGLGTEV
Ga0222717_100142194F033796AGGAMSSDENKTYKVAGINKGKGKGVTVLDGRERVLEEAEQSARLLTGKYALENSVGISNFVAFNTHALTMLPPYSIDMEAEWNYVVEQEGQEDTPSVEINRQAEGSI
Ga0222717_100142196F086976GGTGGMSGDKIPDLDSSGKFVTPISGNKVYKTRKEVVDAHLSEEINNTRFLELIGVYMDAEEEAPEYGFVGVGCISFAESVLQHHQDGVERRVRIPTLYNEYSFKQENK
 ⦗Top⦘



Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
© Pavlopoulos Lab, Bioinformatics & Integrative Biology | B.S.R.C. "Alexander Fleming" | Privacy Notice
Make sure JavaScript is enabled in your browser settings to achieve functionality.