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_10000555

Scaffold Ga0307515_10000555


Overview

Basic Information
Taxon OID3300028794 Open in IMG/M
Scaffold IDGa0307515_10000555 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)88228
Total Scaffold Genes123 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)67 (54.47%)
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 → Ascomycota → saccharomyceta → Pezizomycotina → Pezizomycetes → Pezizales(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?
F004891Metagenome / Metatranscriptome419Y
F048690Metagenome147Y
F051592Metagenome143Y
F059517Metagenome133Y

Sequences

Protein IDFamilyRBSSequence
Ga0307515_10000555107F048690AGGMLQDMDNMEASCIFYVKVSMFTHLEQSKISHLTVNKSGLVRLTLQHNWMVSISFLYHPRDSLRQTSADILFLKQCPI
Ga0307515_1000055568F004891GGAGMITRASGLGMGVGRFSRPRRGVGVITMPDARQDTTRSVEVPPGAGVLQMLVPSVAVGVLIDRCCVADGEVVMRSLISATRELFSEDEGVEF
Ga0307515_1000055584F051592GGAVHLDEVENPHLEVVKHADLHCMEEVGLWEVAHDTENMSKHVECLVNVARPEFGTGSRHVGITQSSI
Ga0307515_1000055593F059517GAGGMGDLERGMLKQRPTFDSTHSNRYQARAQVNTILSHFIQSARDNIAELYDLHHFESDVEHLEFIDSPRADNMYRFPVAGHVEGGVRGPNAR
 ⦗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.