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_10000840

Scaffold Ga0307507_10000840


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000840 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)68168
Total Scaffold Genes20 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)14 (70.00%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (66.67%)
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
F000630Metagenome971Y
F002220Metagenome581Y
F003457Metagenome485Y
F014479Metagenome / Metatranscriptome262Y
F066630Metagenome126Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000084017F002220AGGMHLLKSNSVVKLSFSFGFTIRFAFTSLSSLRAKNCSSPKIIILLVYMPIIPNGVPIVVIKKHGLNVEVVIKSFSL
Ga0307507_1000084019F066630N/AMLLVAGTENYNTLLLTQKSLKAATRWLISQNILDQFWVAKEIAIKGKGASNRRPLITLQE
Ga0307507_1000084020F000630GAGMGVKGIEADLGKGNPSHSIGNTMGGKYLRAPRGPNKGRKYNSNTLKNRNNRTKRLALLGGCSNR
Ga0307507_100008405F000247AGGVHTYVISVALSYKRISYTEVARTNCLASSLNTFVGKTLVPSSSAPFARPSINGNPYYNGGLSLNKGIDPTSIGL
Ga0307507_100008406F014479GAGGLLFSSAISVIEGVCIFLSGNHRYIRVFELLAYLGVRARLAVLPRGLYCHNLSLSEEPFYLNATAFYKVFVEFPLRSSRDFKGE
Ga0307507_100008408F003457N/AMAGLVCFFSTKAFLISAIVIAKIIYSSFLVSCTSGVALIMWISKVLSKLKLSLVSYMVSYLGLGSVLGIELVLDLGLGSLSILFIVEY
 ⦗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.