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 Ga0137417_1120090

Scaffold Ga0137417_1120090


Overview

Basic Information
Taxon OID3300024330 Open in IMG/M
Scaffold IDGa0137417_1120090 Open in IMG/M
Source Dataset NameVadose zone soil fungal communities from Angelo Coast Range Reserve, California, USA - CZODoug3_1_1_16fungal (PacBio error correction)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6254
Total Scaffold Genes13 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)12 (92.31%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Vadose Zone Soil → Vadose Zone Soil And Rhizosphere Microbial Communities From The Eel River Critical Zone Observatory, Northern California To Study Diel Carbon Cycling

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)39.7291Long. (o)-123.6419Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002607Metagenome / Metatranscriptome543Y
F003829Metagenome / Metatranscriptome466Y
F073304Metagenome120N
F093562Metagenome / Metatranscriptome106Y

Sequences

Protein IDFamilyRBSSequence
Ga0137417_112009010F003829GAGGMGTGSESNRDRSGLGRAWEHKNEGCVALSLLTQTRETTGESKTRSRLTLKVPDAARILIVCDDDSDTERLKTILQKAGFVSECAKDITAGCEAAKSGRFQVVVSTPLLRDGSWRRLTDIANHYDLGFEVVLWARTFDLAEWGEALKEGAFDVLDALCEVPRAVEAIKTALWAAYLKGAGPQKAA
Ga0137417_11200903F093562GAGGMSVRSRLLAEAEKQISNPFLMCALVSLRTRQLMMIGNANTSTAQLVDSALNELIAGLLEFERGKPRRPPLIRAESRNEESNGGLESPGVPELSRTLSAEAP
Ga0137417_11200904F073304AGGAMATRSWHSRGLPSWRIWLISRLGRLRNIKSLAPEELPFAGGLILLLAASMLWRAFPMVVTGAVLALILQEIANPSPLFLTVPWEALEFVLSRKVRANHFWLHRTQGLLRESGDALAKIDGCATRDGFFLVGATFNEHQIQWASQSAWRAMCQTPPTKEAATGCKTMQFLLASWLIAGGSAALSLFRGVDLGSGLLLCALCGATGQLLARPAEKLLSAWAGRVACSKKEPWPSRSEVESLAIPRFLWFKRRLVFQVRRTPAQESNEG
Ga0137417_11200908F002607AGGAVSDVTLKYPLWQSHYLQAMAETRPELLKSKIGAAEQVVSVRLRQLASTADDYEEEIALAAALKSLKVLKER
 ⦗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.