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_10000308

Scaffold Ga0307515_10000308


Overview

Basic Information
Taxon OID3300028794 Open in IMG/M
Scaffold IDGa0307515_10000308 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)120499
Total Scaffold Genes137 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)53 (38.69%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina(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?
F004778Metagenome423Y
F038958Metagenome164Y

Sequences

Protein IDFamilyRBSSequence
Ga0307515_10000308136F004778N/AMTSELHSTLDVSGIESLAVGNHIPCMARVIQRTLVTVMSSLGVKGCTKSLEAHERDQQFGENESIDIGKSQRLHKEGNARINKVSAMRPGLAKIIEKVLISR
Ga0307515_1000030876F004778N/AVLDRFELSDGCLLGITTDNASSNYSITRKLESTLKASAIRWPALRNRIPCMVHVIQLALGAFMSSLGVKDGTKSWEAHERDQQFGENKNIDIGKSQRLQKEGNARINKVSAMKPGLAKIIEKVRIS
Ga0307515_1000030877F038958N/AMTDIMAGLFGDVHASKAKPTLLRDSKCLLIASTVSAYSLRQMLLRVVADGRTRSSRNALYDRCSSGLDIAFNGLXAETNPNMG
 ⦗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.