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_10000234

Scaffold Ga0307514_10000234


Overview

Basic Information
Taxon OID3300031649 Open in IMG/M
Scaffold IDGa0307514_10000234 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)143937
Total Scaffold Genes128 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)52 (40.62%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya(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
F036505Metagenome169Y
F042672Metagenome157Y
F079413Metagenome / Metatranscriptome115Y

Sequences

Protein IDFamilyRBSSequence
Ga0307514_10000234101F042672N/AMVVIPTKFKDLHGWADCVDWVIRVVKQTNKMHIVPVGAIVVPAYLVQVNPAVGGINSVWLVNNRVHLDTYWTMY
Ga0307514_10000234119F079413GAGMQGKELLFDNGSLSNVIDDKKPWITCMEVLHLMYDQFFFSANNIGRQPTTLQLFQPLTPQTLALVAAVFHCALFVHATGKEVTVIFIKMNIEVKLSLPH
Ga0307514_1000023446F004778AGGAGMDCFELTDGCLLEITTDNASSNYSMTREVQSTLDASGILWPTMGNHIPCMGHDIQLGLGALMRSLGIKGRTKSWEAHKRYQQFGENESTDIGKSQRLRKEGNSTINKVSAMRPSLA
Ga0307514_1000023466F036505AGAAGMVLVVQLGLDAFMSSFHVKGCTKSCEAQERDQQFRENQRTDIGKSQRLRHEGNATINKVSAIRPGLPKIIEKVCISRHFERPATDLYIAENACCMVDANT
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