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 Ga0307508_10002421

Scaffold Ga0307508_10002421


Overview

Basic Information
Taxon OID3300031616 Open in IMG/M
Scaffold IDGa0307508_10002421 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 9_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)19678
Total Scaffold Genes25 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)14 (56.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
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: Oregon
CoordinatesLat. (o)45.0822Long. (o)-123.061Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F011056Metagenome295Y
F029299Metagenome188Y

Sequences

Protein IDFamilyRBSSequence
Ga0307508_1000242116F029299AGGAMANALTLRVQKADAVARIVPTTFALTLCVRKKFALTVSVCKKRAASGWQMP
Ga0307508_1000242117F029299AGGAMANALTLRVQKADAVARVVRTTFTLTLCVRKKFALTIPICKERAASGWQMP
Ga0307508_1000242122F029299N/AMRCIRMANALTLRYQKLDAMASVVRTTIALRLCIRKKFALTVSVCKKRTASGWQMP
Ga0307508_100024216F011056N/AMTNFDDTYFEDHLYLLELSTFLEPKSQYSFDYTFQSIDSELAGYEQWDTFSDGPIPTPYLEGDHDPWNWYTQYWFNCAHNHTNAEFTENELRDLCDYYFTDDETIHTGDFLDDY

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