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_10002736

Scaffold Ga0307507_10002736


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10002736 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)36125
Total Scaffold Genes13 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (38.46%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (28.57%)
Associated Families7

Taxonomy
All Organisms → cellular organisms → Eukaryota(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
F004663Metagenome428Y
F007022Metagenome359Y
F014479Metagenome / Metatranscriptome262Y
F016500Metagenome246Y
F041673Metagenome159Y
F056201Metagenome137Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000273610F000247AGGLVYTYIIYVALNYKRTPRTEVARTSCLTSSLNIFVGKTPVFSSNVLFTHPFIDGKLYYNSGLSLNKSIDPTSTGL
Ga0307507_1000273611F014479N/AVGPEGFRLLFGSVVTVIEGVCVFLRVVSDCRCARVFKLLAHLGVRACLAILPRGLYCCNLLLLEGPSCLSATAFYKVFVEFLFRLSRDF
Ga0307507_1000273612F056201N/AMAPRRSIELRGPNTLTRKIPYRRMPRQIIVVELSKEHLSMAYRG
Ga0307507_100027362F041673N/AMPYRPTSFLAAHEALLAGLSAGVYFRTGVATGVMGRTWSVQVLLAVAAVHKVDV
Ga0307507_100027366F016500N/AMDKLIVEIIEAKKGLDTFYSIRGFLVAYCLYLFRVNFNSFYTNNKPKVLYSFYSKFIFLNINL
Ga0307507_100027367F007022N/ALVTYFNYKKDSYFAISCPKPKNIGNIKEIEEEETSNKLGKEEP
Ga0307507_100027368F004663GGAMGVLEENGLGSINKEELLKNEPPKGDTGGIPANVFRVVPCLGGRFILLSPSS
 ⦗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.