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 Ga0307515_10005340

Scaffold Ga0307515_10005340


Overview

Basic Information
Taxon OID3300028794 Open in IMG/M
Scaffold IDGa0307515_10005340 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 17_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)26100
Total Scaffold Genes36 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)24 (66.67%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Roots → Unclassified → Unclassified → Ectomycorrhiza → Soil And Ectomycorrhiza Microbial Communities From Populus Trichocarpa Stands In Riparian Zones In The Pacific Northwest, United States

Source Dataset Sampling Location
Location NameUSA: Washington
CoordinatesLat. (o)46.6992Long. (o)-120.899Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004891Metagenome / Metatranscriptome419Y
F046750Metagenome150Y
F059517Metagenome133Y

Sequences

Protein IDFamilyRBSSequence
Ga0307515_1000534030F046750GAGVVYAVQIQCRECRKLLTNSQRPLYFLVEAIRRFIYIKFYHRANNRGKYADGFYNSMIDDKDGHIPSPLSTFTCTGLRHALLEWQKNKGVHPKASKSKLKADRPDHSNYFNYKNDGGKNASCCAATGRKLLTSPGVADTYAFLMKTWNTLPESYQQRVYNNTLATVKRQIQQAENPTPAVVISVEAARVDNAILLDYLTSEVVLEEPEIRSTDPNIPIDNNCTDDELHFGMSGGSGDYQDEGDESDVRNAIPTASRRRRPATELERFNLRTSDVDGYEGEDGNDAYADEEEEASQADDGSTQNVED
Ga0307515_1000534031F059517N/AMHKGDSERGMLKQRPTLDITRSNRYQVRAQVDNVKSHFIQSARGNIAELYDLHRFESNAEHLEFIDSLLPDSKYLFPLAEHVEGGVCGPNPMQRVSKAANE
Ga0307515_1000534032F004891GGAMIARASGLGMGVGRFSRPLRGVGVLAMPDAGLDTTRRVESVCGVPLGAGVLRLLVPGVAVGVIVDSHCVADGVISETRELFSKDNGVEFSPWIVEATELPP

 ⦗Top⦘



© 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.