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 Ga0307509_10057916

Scaffold Ga0307509_10057916


Overview

Basic Information
Taxon OID3300031507 Open in IMG/M
Scaffold IDGa0307509_10057916 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 10_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4105
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)11 (100.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Basidiomycota → Agaricomycotina → Agaricomycetes(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)46.0356Long. (o)-122.86Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F016489Metagenome246Y
F028977Metagenome189Y
F029295Metagenome188Y
F059500Metagenome133Y

Sequences

Protein IDFamilyRBSSequence
Ga0307509_100579164F028977GAGVEMVEIEGGSAIFLSEDFCDGDVLEFVIEVGPFVIESDHVFDAFLTLLLEQCGGGGLGG
Ga0307509_100579166F029295AGGMVEVANPELGSSWWIADMVVGDRECCLRFQGFLYCLVDFRSPLVDPMRGDPQS
Ga0307509_100579167F016489AGGGGGLYVTFDIWETTSKGPYLLGDSLGVMLLGSCRFVPSSQTLDLTGNGEWRGRSLIQDSCTLHCASWAAFLASSIAESRCSRDGISVLLVGWCICGV
Ga0307509_100579169F059500AGGGGGMSVDFSHLASSAAFDVFSYKDFHSGPPVVGCDKLEGFGNSGMSSSFMVVKKGCYSPPKVIVCHDNKCRSMVPVSAVE
 ⦗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.