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 JGI12627J18819_10005226

Scaffold JGI12627J18819_10005226


Overview

Basic Information
Taxon OID3300001867 Open in IMG/M
Scaffold IDJGI12627J18819_10005226 Open in IMG/M
Source Dataset NameTexas A ecozone_OM1H0_M2 (Combined assembly for Texas A ecozone Site metagenome samples, ASSEMBLY_DATE=20130705)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4932
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (80.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Forest Soil → Forest Soil → Forest Soil Microbial Communities From Multiple Locations In Canada And Usa

Source Dataset Sampling Location
Location NameDavy Crockett National Forest, Groveton, Texas, USA
CoordinatesLat. (o)31.11Long. (o)-95.15Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001110Metagenome / Metatranscriptome775Y
F002813Metagenome / Metatranscriptome528Y
F069429Metagenome / Metatranscriptome124Y

Sequences

Protein IDFamilyRBSSequence
JGI12627J18819_100052263F069429AGGMPTDLGRDRRRSTRVRLNVAIEAQGVAEPLKCEGETAVVNLHGAFISTAIPLRVGMIVDIFVVVTGKCARATVVYVNREQPRFCGVALEQSQNVWGIALPPEDWPVTDSEGASE*
JGI12627J18819_100052265F002813GAGGMDHVQVLREKIERLRAEIAQIQELNALYRIQGGNGRDAQVAHGQRHERLQAIQRELAQLATLGSRVRSTEDLKERQRSRLRLLKPAS*
JGI12627J18819_100052269F001110N/AMGNSLTRTLFRIASHWRTAAAVAGFVGIALTCRRCLETGEARAERAERKRQEEIRAVADRISRYARKVHNRYPTGDVVVGEKDLAEQLRKRPDIIGTALTVLLGEQKVQKAPLSGYWKLNV*
 ⦗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.