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 Ga0105242_10000124

Scaffold Ga0105242_10000124


Overview

Basic Information
Taxon OID3300009176 Open in IMG/M
Scaffold IDGa0105242_10000124 Open in IMG/M
Source Dataset NameMiscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS M2-4 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)56723
Total Scaffold Genes53 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)35 (66.04%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

Ecosystem & Geography

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

Source Dataset Sampling Location
Location NameMichigan, USA
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F007132Metagenome / Metatranscriptome357Y
F011178Metagenome / Metatranscriptome294Y
F026373Metagenome / Metatranscriptome198Y
F064021Metagenome129Y

Sequences

Protein IDFamilyRBSSequence
Ga0105242_1000012422F064021AGGMKKVLLAISVAALALTGCMSAMNTVLPPGRMSEAGEIRPCHRDYRDAQACGNALFNETVIDQIHTGQTLTDVRAIMRHDAERRTVAGSIESWGYITNYTDKVMTWIAFTDQKVSSVTQEPWVRD*
Ga0105242_1000012429F007132AGGAGMSRQTVRMTAGKVLRSEDLIADEKEVAAGILLANPDFGNPHVVRCPWCHETRTLFRDENEGPFTLTAHGWLCESCDVRAASQEVKF*
Ga0105242_1000012433F026373AGGAGMISTQSFDEIRVYAGVAERTGAHFERDTVRRSATFCRSLSELMRKVRASGDGVFYLPVKIWPADAERVDVTKRWLVLSSLPVA*
Ga0105242_1000012435F011178N/AMKITIEDRGRPTLRERLRERLDRAARLRCPEHDQPVVAVAIHGRENGWFDSTWTTCCEALEQQAAAIVKARC*
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