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 Ga0210391_10004826

Scaffold Ga0210391_10004826


Overview

Basic Information
Taxon OID3300021433 Open in IMG/M
Scaffold IDGa0210391_10004826 Open in IMG/M
Source Dataset NameForest soil microbial communities from Barre Woods Harvard Forest LTER site, Petersham, Massachusetts, United States - Inc-BW-C-12-O
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)11153
Total Scaffold Genes23 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)19 (82.61%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Forest Soil → Soil → Forest Soil Microbial Communities From Barre Woods Harvard Forest Lter Site, Petersham, Massachusetts, United States

Source Dataset Sampling Location
Location NameUSA: Massachusetts
CoordinatesLat. (o)42.481016Long. (o)-72.178343Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000042Metagenome / Metatranscriptome3762Y
F000309Metagenome / Metatranscriptome1327Y
F001932Metagenome / Metatranscriptome615Y
F010204Metagenome / Metatranscriptome307Y
F018587Metagenome / Metatranscriptome234Y

Sequences

Protein IDFamilyRBSSequence
Ga0210391_1000482611F000309GGAGMSANEKQSLDQTLEAAVVVSWIDLMHGNQTGLIHIEYGFAPTGTLDNLKIWSSITRGHWLLACEYWMSESKFHGKGVRFNNGYESEGLAHILESVMQHQKSFVLPANLGRQGLLQIATPTEVESAAAAAWMSETLDRLGSPVPEPTLA
Ga0210391_1000482618F018587GGAGMDIVMRPLLARVRSLRAFIAASLRKMLGMEAHDGDFASQRVCPSCGLITPRYETCCLECGKALKPA
Ga0210391_1000482619F010204AGGAGMRSFWEQTGVLGPIYRLLGEGLNDDDIAVRLNLTQAKVQGCVAWIIHFLELKSRQELVLHASAAA
Ga0210391_100048264F001932AGAAGGMRSKFVLWSSLLIVGFLSGFILQYSRLRRSQQALSAATEQLGACRSSEQLSQFRDTATMMYLQAVQKNYGEAGEYAKEFFDEAQRIGSSTGDPQLQPLLRDILASRDQITGDLAKGDVAALSEIQPVLLKLEQTAKR
Ga0210391_100048267F000042AGGAGMKTIKFVVKVIRGGACSAEYVERIDRSPIQMTSNRKRALTMGRFTAEDAVKSIHNSRCIPELVPVKI
 ⦗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.