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 Ga0224495_10002471

Scaffold Ga0224495_10002471


Overview

Basic Information
Taxon OID3300022208 Open in IMG/M
Scaffold IDGa0224495_10002471 Open in IMG/M
Source Dataset NameSediment microbial communities from San Francisco Bay, California, United States - SF_Jul11_sed_USGS_4_1
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)12003
Total Scaffold Genes16 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)14 (87.50%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Sediment → Unclassified → Sediment → Estuarine Microbial Communities From The San Francisco Bay-Delta (Sfbd), California, United States

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)38.05Long. (o)-121.934Alt. (m)Depth (m)11
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F006410Metagenome374Y
F012730Metagenome278Y
F106037Metagenome / Metatranscriptome100Y

Sequences

Protein IDFamilyRBSSequence
Ga0224495_100024712F106037GAGGMAKVSCRECYFIKASGPSLDYLIEKAKRAVDEIGVPPKYHINLYKNVYACCGVSGTGLILEVTGPSEQKIKSLDLKAVAKILELCEKEKIEHHHFEPLEIG
Ga0224495_100024714F006410GGAMAEKPKISPEKAKEMQERSRERSLILNQIKNQGPQTLDELSKVTGIDKEKLFKHMIAMRQFGKVAIAGERDNQLVYGLPEG
Ga0224495_100024716F012730GAGLRRALSTVGFEEMKGKTFTEIRVTEKLCEVCDKPIRAEEQILKTVQINDYDSYSNLLTRQRAHDRVEVDLEENKIYLYHHDYPGDVHPSCIDKL
 ⦗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.