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_10000277

Scaffold Ga0307514_10000277


Overview

Basic Information
Taxon OID3300031649 Open in IMG/M
Scaffold IDGa0307514_10000277 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)132048
Total Scaffold Genes159 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)59 (37.11%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Associated Families4

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?
F008531Metagenome332Y
F048690Metagenome147Y
F081952Metagenome / Metatranscriptome113Y
F088003Metagenome / Metatranscriptome109Y

Sequences

Protein IDFamilyRBSSequence
Ga0307514_10000277123F081952AGGMVNTLKKNISPLPARKYGKSKLRSTQRRHQANEGKSGPEAERVRALGALRSLRSAKTIAAEKQ
Ga0307514_10000277133F048690N/AMLNHMNNLDVSCVFYVKVGTFAVLEQSQTSLLTVKENGIVRLTVQYDLIVSVSFMYYPGNHFRPTSADVLSLNQCPLD
Ga0307514_1000027725F008531AGGMSSLGVKGRTKSWEAHERDQQFGENARTDIGKSQRLRKEGNAGINKVSAMKPGLAKIIEKVCIS
Ga0307514_1000027729F048690N/AMLQDMDYMEASCVFYVKVCTFTHLEQRKTSLLTVKEMGIVRLTVQHDLIVSVSFIYHPGDYLRQTSADVLLLEQCLRNN
Ga0307514_1000027730F088003N/AMEHHDVVSSGIFADVFPDKNPREWTKQALITLGEATEAYMVEVIAASHC
 ⦗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.