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 Ga0209648_10027000

Scaffold Ga0209648_10027000


Overview

Basic Information
Taxon OID3300026551 Open in IMG/M
Scaffold IDGa0209648_10027000 Open in IMG/M
Source Dataset NameGrasslands soil microbial communities from the Angelo Coastal Reserve, California, USA - Sample 9_17_2013_115cm (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5019
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (42.86%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Rokubacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Grasslands → Grasslands Soil → Grasslands Soil Microbial Communities From The Angelo Coastal Reserve, California, Usa

Source Dataset Sampling Location
Location NameLaytonville, California, USA
CoordinatesLat. (o)39.7392Long. (o)-123.6308Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F025253Metagenome202Y
F031042Metagenome / Metatranscriptome183Y
F040564Metagenome161N

Sequences

Protein IDFamilyRBSSequence
Ga0209648_100270002F031042GAGGMCLQSVMRTRVGLAALALLVGACTSGTPLPQPPPPGAGVTINDIRGSWRGTWGGAPVSLLITDQEARAGYSGLYVGNYQVLGHDRPGVAGILTSQIDNAQTSVRAQGWFGGVGDQLTLRLLADSPSGQQRLTLRPDGPNRLVGVGDSSFRWGPAGPIELTREPAR
Ga0209648_100270003F040564AGCAGGMATLTALCCDEATVVLCSRLRKLGFEVSWLYMDELRHGRIEPEALADSGPPDLILYDLDEPVDESLRLLTLFRSLPGMGAVPVVLLRTAQMPLPPLDAPGIVAVLTRPCEAALARTIIEAALRDGVDGLDEAA
Ga0209648_100270004F025253N/AMRAPAATLLWLVVCGAAAAAGPTDIARVDEFIDAPRALFGRTRAELERTLGTPTDVRPRAGAVLLSWPGLDVAVSRSSRVAAVVLRAAGRPLPHGLDVGTPRARVEAVLGEAQDATDERYAYVDADGFPNSVEFFFRAGRVTRIEWRFWAD
 ⦗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.