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_10000516

Scaffold Ga0307507_10000516


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000516 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)81616
Total Scaffold Genes23 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)17 (73.91%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (71.43%)
Associated Families7

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta(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
F005943Metagenome385Y
F013992Metagenome266Y
F014479Metagenome / Metatranscriptome262Y
F032490Metagenome179Y
F039539Metagenome163Y
F088008Metagenome / Metatranscriptome109Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_100005161F039539AGGAVDLLEDNMPVELNKLLTSDFKKFIKLKKGLTNKELCKLLPKRYHDFINICL
Ga0307507_1000051613F088008GAGVLLHLIIKGLFSCNIITLNNLLIKIAPFTVYNRANNLASVLDVITIPCLFAL
Ga0307507_1000051619F013992AGGMWNYKPIAVIIVLYIAVNIYNHSRLIVLVTNNFAGLILSRVGHRDLGICFGNKPSP
Ga0307507_100005166F014479N/AVGLGGFWLLSSSIATIIEGVYIFLSIAGNYRYIRVFKLLVHLSVGAYSAVLPRGLYYYNLSLLEGPSCLSATAFHKVFMEFPFRLSRDFKGGWWM
Ga0307507_100005167F000247AGGVETNIINITLSYKRTLYTGVAHTNYLTSSLNTFTGITPVPSSGVLFTYLSINGKPYYNSSLSLNKSINLTSTSL
Ga0307507_100005168F005943AGGMLWNVGNGYKAYVFGESTRRYAIDRKGRGRKEVIYPRVADISYTRGVCKSTGFSYGCPYGRVP
Ga0307507_100005169F032490N/AMLNLKNNPILILKLQHQLVLGGFNLLALALTPKGKPSGLKDYNNYKGDIDNVLSFINYITIDKQAEGLLPIKIKI
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