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_10003029

Scaffold Ga0307507_10003029


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10003029 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)33615
Total Scaffold Genes15 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (40.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

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?
F000630Metagenome971Y
F000746Metagenome908Y
F007161Metagenome356Y
F020829Metagenome221Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_100030291F007161AGCAGVPYYLVNRYKSDRGIILKLGLKVPLGIPYGLTKEVEHFGFFRKEIVMVNIELSSYLNPPILKGRVYPIRQWLGVRELNKL
Ga0307507_1000302910F000630N/AMLERYIEVKGIKANLGKRTLSYGIVNAIGGKYLRALRRPNKDRKYNSNTLKNRNNRTKRLALLGRYSNRQPKMQI
Ga0307507_100030294F020829N/AMPLVSSKPITNIIFSIYRTPLTLGLYILIIYTSPLYIWIIITAIFRLTTYYNYKDRLTALLIIKHIYIAAFGLYRS
Ga0307507_100030299F000746GGAMVAIVGNTEEGIINVNYKATVEVLVKVYFKVIARRSAMFIRS

 ⦗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.