NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0307507_10000296

Scaffold Ga0307507_10000296


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000296 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 7_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)99589
Total Scaffold Genes32 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)15 (46.88%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (57.14%)
Associated Families7

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: Oregon
CoordinatesLat. (o)44.5508Long. (o)-123.25Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000630Metagenome971Y
F002555Metagenome548Y
F004318Metagenome / Metatranscriptome443Y
F015182Metagenome256Y
F020829Metagenome221Y
F056201Metagenome137Y
F061416Metagenome131Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000029610F061416AGGVKLAIPIDQVAYAGLFLLGRALEWFKPYLIEIQANGITTTNPDVWYVFVS
Ga0307507_1000029611F056201N/AMAPSRNKKLRGPNTLTRKIPYRRMPRGIIVVGVPRKHLSIVYRGKEIN
Ga0307507_1000029615F002555AGTAGMLGIFKDKDKEEGDSVTDSLSTMLQLLREELEEAS
Ga0307507_1000029616F020829AGTAGGMPLVSSKLITNIIFSIYGTPLTLGLYILIIYTGPLYIWIIITIISRLTAYYNYKDRLIALLIIKHTYIAAFGSYRS
Ga0307507_1000029617F015182N/AMAGGYVTKVISNFFKKIFLVFSIILDKDSNIFLEFNIELIK
Ga0307507_100002964F004318N/AVLSGLRLSLVSYIVLGSVLDTELVLNLGLGSLSILFIVEY
Ga0307507_100002966F000630GAGMGVKGIEADLGKRNLSRSMVNAIGGKYLRAPRRPNKGRKYNGNTLKDRNNRTKRLALLDRCPSR
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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