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 Ga0307514_10000335

Scaffold Ga0307514_10000335


Overview

Basic Information
Taxon OID3300031649 Open in IMG/M
Scaffold IDGa0307514_10000335 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)111836
Total Scaffold Genes129 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)78 (60.47%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (50.00%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → Pezizomycetes → Pezizales → Pyronemataceae(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
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004778Metagenome423Y
F004891Metagenome / Metatranscriptome419Y
F006048Metagenome382Y
F038958Metagenome164Y
F081959Metagenome113Y
F089625Metagenome / Metatranscriptome108Y

Sequences

Protein IDFamilyRBSSequence
Ga0307514_100003351F089625N/AMTPLGFATGLSLNQAETQPVQSNQDENNYGRQQMMNGQYIKMSLNGASTICSLVSTVIHQ
Ga0307514_1000033520F004891GGAMGVGRFSRPLGGVGVLAIPDAGLDMMLRVESLCVIPLGALVLRLLVPGVAVGVIIERRCVADRVEVTC
Ga0307514_1000033521F006048GAGGMQWPTWDITRPNWYQVREQVDKVKFHFIDSARDNIAEHYDLHRFESTVERLEFIDSLLADNKYLFPIAERVERGVRSPNPMQRDSKAANQCLASTVLPGRSNPTVYLHHILLSGE
Ga0307514_1000033523F081959GGAGMSMGMRARMATMRMRRKKHRKPMLDQLRMWRTECIVPESVKIGQYISEM
Ga0307514_1000033525F038958N/AMTDITANLFVIVHLSKAKLGLFLDGNSFLIASTVNVYFLRDIFLRVLANGTTNSLCNTLYHSRSLEFDTALHGISAETKPNMRYLFQVSW
Ga0307514_1000033539F004778N/AVLDHFELTDGRLLGITTDNASSNYLTTRKLQTKLKTSGIELPALRNHIPCVALIIQLTFSAFMSTLSVKGRTKSWEAHERDQQFGENESIDVGKSQRLRKEGNARINKVSAMKPGFAKIIVKVRIS
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