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 Ga0307514_10000292

Scaffold Ga0307514_10000292


Overview

Basic Information
Taxon OID3300031649 Open in IMG/M
Scaffold IDGa0307514_10000292 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 16_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)126306
Total Scaffold Genes165 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)103 (62.42%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (16.67%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya(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: Washington
CoordinatesLat. (o)46.6253Long. (o)-120.532Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004891Metagenome / Metatranscriptome419Y
F006048Metagenome382Y
F008227Metagenome336Y
F038958Metagenome164Y
F042672Metagenome157Y
F080709Metagenome / Metatranscriptome114Y

Sequences

Protein IDFamilyRBSSequence
Ga0307514_10000292154F080709N/AMVELSTRKREIRGDGGNHHEKLGLERISCASQLTIPDMAGTSHDPAGNNTDTRSSKPNQVTSTPNEASRTPDFS
Ga0307514_10000292159F008227N/AMDTQPPPPGVSGSNTGRLAGATSNTEILGTQQERRHKLVHRDAADVATKHMTQDAHLKIVRKTASRRNRKQHAVGCEYIHIDAIGGQLTI
Ga0307514_10000292164F038958N/AMTDVMASLFVDVHPSKAKLTLFHIGNCFLIASTVSAYSLRQMLLRVVVDGRTRSSCNDLYDCRSSRFDIAFHGICGEKNTNMR
Ga0307514_1000029247F042672GAGVVIRTKFNDHHGWADCVDGFIKVVKQMNKMHIVPVGAIVEPVPLVWENAALGSIDSVWHVNDHIDLDTY
Ga0307514_1000029277F006048N/AMLKQQPTWDITHSNWYQVRAQADKVKSHFIQSARDSVAEHYNLHHFESDAEHLEFIDSLLADNKYLVPVAKHVEGGGHGPNPTQRELKATNEWPATTLLPGGSNPGVYLHQILSSGE
Ga0307514_1000029288F004891N/AMIARAYGLVMGVGRNSRPLRGVEVLAMCGMGLDTMRCVECVGKVPQSVGVLRLLVPSVVVAVLIDHHCGADGVEVTY
 ⦗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.