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 Ga0307507_10000204

Scaffold Ga0307507_10000204


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000204 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 7_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)111559
Total Scaffold Genes63 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)41 (65.08%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

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: Oregon
CoordinatesLat. (o)44.5508Long. (o)-123.25Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002555Metagenome548Y
F027375Metagenome194Y
F050242Metagenome145Y
F094694Metagenome105Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000020437F002555N/AMLGIFKDEDKEEGDSITDALSTILGLLREELEEAS
Ga0307507_1000020448F094694AGTAGGVVSILKVSSVYMVCEVLSEHIHLLALTYIVTIINFIGKSKYQLFYF
Ga0307507_1000020454F050242GGAMRLYVPAGTAEDVGHFSSSSREVVRIDFKLVLQLKLPIVKHRVSSVRKQQGVRDLHGP
Ga0307507_100002046F027375AGGVLIFRRIFNRRQNKAQNALLNIVPLSDIIPLSVLNKSHCSKNRSTSSAAVIIIITAKYPKNFVYLLIITRIALATSPILILVGGKPIIKSIINSNIGPYKIGSTDNSLYRQYLDIYTLWHVLYLNI

 ⦗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.