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_10000392

Scaffold Ga0307507_10000392


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000392 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)90759
Total Scaffold Genes18 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)11 (61.11%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta(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?
F000247Metagenome1464Y
F003457Metagenome485Y
F016500Metagenome246Y
F032105Metagenome180Y
F037003Metagenome168Y
F078050Metagenome / Metatranscriptome116Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_100003921F078050GGAVDIKERLDKKKQLEDLREKARARRKDLDEIMVQLTH
Ga0307507_1000039212F003457N/AVVGLVCFFSAKAFLILAIIIAKIIYSGFLVSYTINIAPIMCISKVLSELRLFLVFYIVFYSALGSVLNIKLVLDLGSGSLSILFIVEYQFF
Ga0307507_1000039213F000247AGGVQTNIINIALSYKRTPYTEVAYTKYLTSGLNIFADKTPVSNSGVLFTYLSINGKPYYSGGLSLNKSIDLTSTSL
Ga0307507_1000039218F016500AGGLYKRLCYYSIVIDKTAIEVVEAKEGLDPLYSARGFLVMDYFDLLRVNLNSFCINNEPKVLCSFYPKLIFLNINL
Ga0307507_100003922F037003GAGMEEIRKEQIVEGEIKEYVIKDKIIEETVEVKRNYLSVLAIHYLQTIPLTERACKDIL
Ga0307507_100003927F032105GGAGVDVTTTAKAPQLKLVRIMDILKGNVLSLAIIVDKILLKTIKVIVSNCLIYIPKVVRLFFKPLLLPLIEPY
 ⦗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.