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 Ga0307515_10001872

Scaffold Ga0307515_10001872


Overview

Basic Information
Taxon OID3300028794 Open in IMG/M
Scaffold IDGa0307515_10001872 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)46832
Total Scaffold Genes61 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)20 (32.79%)
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 → Tuberaceae → Tuber → Tuber aestivum(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
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004891Metagenome / Metatranscriptome419Y
F006048Metagenome382Y
F008531Metagenome332Y
F042672Metagenome157Y
F060560Metagenome132Y
F086388Metagenome / Metatranscriptome110Y

Sequences

Protein IDFamilyRBSSequence
Ga0307515_1000187227F008531AGGAMAHVILLALGAFISSLGVKGRTKSWEAHERDQQFGVNESVDIGKIQRRRKEGNARINKVSAMKPGLAKIIETVCIFHDILKLLKLTFI
Ga0307515_1000187244F086388N/AMETGDKTAERLEMAAVKEGTRTLAADIIDWCVSQIHCLCEWHVVNFYPVILNCRHRVVASQIGHPVDPYSLSSVEILASTCSVKQR
Ga0307515_1000187251F042672N/AMCKKTQQWILRSQPQEYAVVIPTKYNDPHGWADCVDGFIQVVKQTEKMHIVPVGAIVGPAHLVRENNAASDRIDSVWLVNNHVDLDTYWTVY
Ga0307515_100018726F004891GGAMITRAFGLGIGVGRFLRPLRGVQVLAMPDVGLDTTRRVGSVGKVPPGAGVLQLLVPGVAVGVLIDRRCVTGGLEATC
Ga0307515_100018727F006048N/AVHKGDLERGMLQKQPTLDITGSNRDQVRAQVDQVKSRCIQSARDNIAEPYDLHRFESAAERLEFIDSLVADNKYLFPVAECVEDGVRGPNPTQSESKAANESPASTSLPDGSNPGVYLQQTVSSGE
Ga0307515_100018728F060560GGAMIDNKDGQIPSPPIMITCNALRHALMEWQMNKGVHSKASKSQLKADKPDRSNYFNYKNDGGEKASCCAATGHKLLTSPGIADTYTFLMNTWNTLPESYQQRVYKNTLATVKRQIQQAENPTPAEVISVEAARVDNAILLDYLTSEVALKEPEIRSADPNIPIDNYCTDDELHFGMPGGRGDYEDECDESDECDAIPTASR
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