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 Ga0307516_10014358

Scaffold Ga0307516_10014358


Overview

Basic Information
Taxon OID3300031730 Open in IMG/M
Scaffold IDGa0307516_10014358 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 19_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)8383
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (70.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
Not Available(Source: )

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)47.5302Long. (o)-121.825Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003346Metagenome492Y
F011127Metagenome294N
F083465Metagenome112Y

Sequences

Protein IDFamilyRBSSequence
Ga0307516_1001435810F011127N/AMDNVLGMIHGESSTIPPSHYKASACTPASCPWGRQTPKPPCTSGFPRQPVTPIIAFNVNGYKLRRGDRFLPYPLLAEVSGRAQSKTVRHDRFKDLYLRDFVHAGKMIWRDRYRNVELTHFQEEMMARGLAIEHLEVDPVPEVADTCLGFTAVAMAEVFSELEKCDEEVGIRIPSLL
Ga0307516_100143586F083465GGAGMFRTLVKEYGMEVAQGVFEQTVRELGVEMNHDVLGCRECHWEGRDIIYCRRSRHNREHPYHECHIGQECCWMS
Ga0307516_100143589F003346GGAGVKTLEKRCLEMADKCEDLMGKYESMLRRTTQVEMSVGILRSRFETYPPQQFDLTVLEEDVLDSPITLGNHVVASGPRTLEERIELGRDWEQWLASVEDVEEEERLVAEVKETAKAWVDSLVGDIDIAPK
 ⦗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.