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_10100847

Scaffold Ga0222717_10100847


Overview

Basic Information
Taxon OID3300021957 Open in IMG/M
Scaffold IDGa0222717_10100847 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)1804
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (77.78%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Associated Families6

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

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?
F003976Metagenome / Metatranscriptome459Y
F004856Metagenome / Metatranscriptome421Y
F010532Metagenome302N
F010571Metagenome302Y
F047975Metagenome / Metatranscriptome149Y
F059441Metagenome134N

Sequences

Protein IDFamilyRBSSequence
Ga0222717_101008471F047975N/ALRMSMIKEEWAENTVDDMEWKDLARIVYDVMLDSVKDMSDKEFKEYLIECGYDEELI
Ga0222717_101008472F010571GAGGMSMNTRQAIYIENLYEGFYEKHYKELSKTSDDVEWIEKEASRLAEIDLDNFEMEG
Ga0222717_101008473F059441GGAGGMKTWSSTITYSVFDMGRECETEEEYKEWVKETFILDHNIYLRDDEITNIEREELYNE
Ga0222717_101008474F003976GGAGGMSRLYNDYYFEKLDILDTLDKLDMSVRLLNVWVNEPMGLENAKYVLEKNANQEFNWFSRDMVKELVEEETYESI
Ga0222717_101008476F004856GGAGGMSDWIEGTKPKKIEARYSAYLSWDLDELGIDWDDIEDWDLSRADLEITFKDGTKKTYENWQDLDVDYKHNFEEVLILDENWDRVEGLN
Ga0222717_101008478F010532GAGGMNKTLYKKLEDICAREYIINKLSANKFRTFVDFLYDDIRTWDKPMNVSEVDIIHRIEEHMSYMVSSYLNKSYEGISVD
 ⦗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.