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 Ga0068862_100719667

Scaffold Ga0068862_100719667


Overview

Basic Information
Taxon OID3300005844 Open in IMG/M
Scaffold IDGa0068862_100719667 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS Switchgrass S5-2
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)968
Total Scaffold Genes2 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizoplane → Epiphytes → Unclassified → Switchgrass Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameUSA: Michigan, Kellogg Biological Station
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000285Metagenome / Metatranscriptome1374Y
F011737Metagenome / Metatranscriptome287Y

Sequences

Protein IDFamilyRBSSequence
Ga0068862_1007196671F011737GGALRKIPKRLRGTNFCTSSARFAPTFVRQPNGPECTQIVRNASKRQFTVQWGGSEDLLRKIPTRLRGTNFCTSSARFAPSFVRQPNGPEWTQIVQNAQKFQFRVQWGGSGVFVAKNSDTTSWHELLHYFGPFCTEFRKATKRSRMHPNSMKRTKTSV*
Ga0068862_1007196672F000285N/ASGPFGCLTKLGAKRAELVQKFVPRSRVGIFHNEHIRSTPLHRKLTFWLVSYYLGAFGTVWLPYETRCKTAELVQKFVPRSRVRIFCNERTRSTLLDPKLTFSCVSYYLGAFGTVWLPYETRCKTGRSSAKVRATKSCRNFLQQTHPIHPIGP*
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