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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Sample 3300013064

3300013064: Corn rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - Diel MetaT C5am-4 (Metagenome Metatranscriptome)



Overview

Basic Information
IMG/M Taxon OID3300013064 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0090294 | Gp0175823 | Ga0154013
Sample NameCorn rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - Diel MetaT C5am-4 (Metagenome Metatranscriptome)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size4865871
Sequencing Scaffolds7
Novel Protein Genes7
Associated Families7

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
Not Available7

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameCorn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa
TypeEnvironmental
TaxonomyEnvironmental → Terrestrial → Soil → Unclassified → Unclassified → Corn, Switchgrass And Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Alternative Ecosystem Assignments
Environment Ontology (ENVO)terrestrial biome → rhizosphere → soil
Earth Microbiome Project Ontology (EMPO)Host-associated → Plant → Plant rhizosphere

Location Information
LocationUSA: Michigan
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)N/ADepth (m)N/A
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001233Metagenome / Metatranscriptome741Y
F003383Metagenome / Metatranscriptome490Y
F030315Metagenome / Metatranscriptome185Y
F033016Metagenome / Metatranscriptome178Y
F057921Metagenome / Metatranscriptome135N
F076133Metagenome / Metatranscriptome118Y
F096734Metagenome / Metatranscriptome104N

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0154013_100758Not Available501Open in IMG/M
Ga0154013_100760Not Available565Open in IMG/M
Ga0154013_103735Not Available952Open in IMG/M
Ga0154013_104895Not Available504Open in IMG/M
Ga0154013_108768Not Available593Open in IMG/M
Ga0154013_109037Not Available508Open in IMG/M
Ga0154013_111669Not Available590Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0154013_100758Ga0154013_1007581F033016MEVAERRQPLRASERPLRATGSGQEAASGEPGRIDPAAGENSHRGAERRIVRRFCSQC
Ga0154013_100760Ga0154013_1007601F096734LQVARSSFAPRCAATVLFIAQRFGSSFQIRYFLPGSL
Ga0154013_103735Ga0154013_1037351F003383MSRRVAPLPASSRPSRVAFPGCPFRAPFLLSRRPKPWVAPWLQSFGCAGDGCSSCPEPRMPLTLPVSAGIRVAPVAPASSCLASDAGLGLPLVLHLRLYRRWIIESPRCSHLSAVPSCQFSSCPANQPFGIADDSSFELPRTSNPPAPIDGYPSYPGSRTYRFALVESPSCPGSSSLATAIDQFPGCPKSWVSHRSPIRRVSSYPESWLLG*
Ga0154013_104895Ga0154013_1048951F076133RFDPCADAVTPEGFGCYCADQNAITAPGGPTPPKGFTRRTGEARKGAVIAGSERTWQSP*
Ga0154013_108768Ga0154013_1087681F030315VIKYNEFIIIIKYENILLIRNDVEALKYKYQIGLDTLLVYTIKYEY*
Ga0154013_109037Ga0154013_1090371F001233LRWKAAVNRLKLKVSRMIPGNWGKAESGWLARPLLKRTARFGSGGRIHQFLWRCSRTVSNAKRNLAVRGDKKPPSAE*
Ga0154013_111669Ga0154013_1116692F057921FQVTRQAACSPAGMHGQNVASGDGVTLSPLLPVAGFARQRINALVRVR*
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