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 Ga0307408_100021827

Scaffold Ga0307408_100021827


Overview

Basic Information
Taxon OID3300031548 Open in IMG/M
Scaffold IDGa0307408_100021827 Open in IMG/M
Source Dataset NameMaize rhizosphere microbial communities from greenhouse at UC Davis, California, United States - 322HYB-C-3
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4339
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (70.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Micrococcales(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Rhizosphere → Maize Rhizosphere Microbial Communities From Greenhouse At Uc Davis, California, United States

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)38.5Long. (o)-121.7Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000712Metagenome / Metatranscriptome925Y
F039698Metagenome / Metatranscriptome163N
F095083Metagenome / Metatranscriptome105N

Sequences

Protein IDFamilyRBSSequence
Ga0307408_1000218271F095083AGGAGGVLNDTWYSRDLQVLTAIAEKLERGSAPVDTEQLIDELGLTRQDLMAALRALDVEYLIVRWPERITYRRSDPSTFVERITSRAREAVGLWPSAEVRQTAQPRPGHDQE
Ga0307408_1000218273F000712AGGAVGHRRFCTRCAGYACMDGTEASVEGTEMTEVQARGTGALNIERIYSTTVPAEELAQALADHFRAQEFEAQVYRTSENHTVMQGRKGLLTR
Ga0307408_1000218274F039698GGAMTQPPQPPPTQVFAQQRRSGCGTLLIALLVLAIITAIVIFLGAFGLLDWIFS

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