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 Ga0307515_10004081

Scaffold Ga0307515_10004081


Overview

Basic Information
Taxon OID3300028794 Open in IMG/M
Scaffold IDGa0307515_10004081 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 17_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)30444
Total Scaffold Genes39 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)18 (46.15%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (71.43%)
Associated Families7

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → Pezizomycetes → Pezizales → Morchellaceae → Morchella → Morchella sect. Distantes → Morchella sextelata(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)46.6992Long. (o)-120.899Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F006048Metagenome382Y
F008531Metagenome332Y
F019765Metagenome227Y
F038958Metagenome164Y
F047400Metagenome149Y
F051592Metagenome143Y
F081952Metagenome / Metatranscriptome113Y

Sequences

Protein IDFamilyRBSSequence
Ga0307515_1000408113F019765GAGMLQVMDNMEASCVFYVKVGTFTHLEQSKISLLTVNQSGIVTLTVQHGMIVSVILV
Ga0307515_1000408118F038958N/AMTDVMANLFVDVHPSKAKLTLIRNSNCFLIACTVSAYSLRQMLLRVVANGSTRSSRNALYDRRSSRFDIAFHGIYAQTIPDMSYRFHVSW
Ga0307515_1000408119F008531AGGAMAQVIQLTYSALMSSLVVKGRTKSWEAHERNQQFGENESIDIGKSQRLRKEDNARLNKVSPMRPGLSKIIEKVHIL
Ga0307515_1000408123F051592GAGMRLHEVENPLLEVVKHADLHCMEEVGLREVVHNTGNMSKHLESSVNMARREFGIRCLGVGIAARSI
Ga0307515_1000408132F006048AGCAGMLKRRPTFDITGSNWYQVRAQVDKVKSQFIQLASDNIAELYDLHRFESTTERLEFIDSLLADNKYLFPIAERVSGGVCGPNATQRQSKAANKWRASTLLPGGSNPAVYLHQIFSSGE
Ga0307515_1000408133F047400GGAMNTFVLLPLQESMAQRGAGEHDQWRGYMTVLVVNHGIIKSISIFTAVIRLMKKFDVDKLRDCFRQEVKWTLAIC
Ga0307515_100040815F081952N/AMVNALKKNISTHPVGIYGKSTKRSTQRCHQMNEGKSGLEAERLQALGALHSLRSKNRLAAEKRQETHFLSNEEKQI
 ⦗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.