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_10000035

Scaffold Ga0307507_10000035


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000035 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)188121
Total Scaffold Genes60 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)32 (53.33%)
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?
F000247Metagenome1464Y
F002220Metagenome581Y
F014479Metagenome / Metatranscriptome262Y
F015315Metagenome255Y
F024756Metagenome204Y
F041673Metagenome159Y
F093556Metagenome106Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_100000354F015315AGGAGMGLATEGDNIGICKACVKDANSLKDPTLPPLFSESNGLNLGPIPSFLPILTAVEELLIVRVYIYLQVVRIRGQ
Ga0307507_100000355F093556N/AMQYPPAINPLPTELSSNILDSEFDNDVLNTLVPNLVPNFNKLELLSREV
Ga0307507_1000003550F000247AGGVCTNVIYVTLSYKHTPRTEVAHTNCLIGSLNISIGKTLVPSSGVPFAYPSTGRKPYYNGGLSLNGSIDPTSISL
Ga0307507_1000003551F014479GAGGLLSGGVTSVIEGVYVFLSGNRRCARVFELLVHLGVGARSAVLPRGLYCRNLLLLKGPSYLNATAFYKVSVEFPFRLSRDF
Ga0307507_1000003554F041673N/AVPYRLISFLTAHKALLAGLSIGVCFYTGVTTGVMGGNWLVRVLLAVAAVRKIGI
Ga0307507_1000003555F024756GGAMPIYSMAYYIIVGESTGTNSLKYLILCLISIIAAGEIEVSNLYKTFLDLLL
Ga0307507_1000003557F002220N/AMESLFRERMHPLKSNGVIKLSFSFSFAIRFTFTSLSSLRAKNWLSPKIIILLVYIPTIPNGVPIVVIRKQGLNIEVVIKSFSLWCLL
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