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 Ga0070704_100311988

Scaffold Ga0070704_100311988


Overview

Basic Information
Taxon OID3300005549 Open in IMG/M
Scaffold IDGa0070704_100311988 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-25-2 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1314
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Agricultural Soil → Corn, Switchgrass And Miscanthus 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?
F001698Metagenome / Metatranscriptome650Y
F008441Metagenome / Metatranscriptome333Y
F045282Metagenome / Metatranscriptome153Y

Sequences

Protein IDFamilyRBSSequence
Ga0070704_1003119881F008441N/ALLKAAGRARILAVVPAPRMPDESGGDRQAQLLEAYAEAGLLWAKVVGSSLALAGTLIERGEWEDVRALAGLLAGAGEENAATELRIRLGGAVWEAHREQLRAISNNMPPAAIELAINALRAILREVPEEFPDRNREVNCFLPPLASAVHAIMQKQGAEIPYHSRVEHIATGGVAKYPDIVKTSLDELAAEFDGICRRPGGPTT*
Ga0070704_1003119882F001698AGGAGMAGVVNDIEALAEFRAHLMRFNHDLAENFATIQSHWRELGEIWRDDMYRLFGEALEEVTPGIATYLSATEGHEAHLAALIERLSGYLETGAGAGLGIGRPPEVRGGMAGGTGQGTARRDRNSR*
Ga0070704_1003119883F045282GGAVTGIHADIDALKGLHDALARYRHAQRDVTARGEDQLTATRASLEAKASRLRARLELGQAEYTACQDRAARADPDDPVDCSGYARAVQQDSERLEQIRLWQQRIDAEAGEFSG

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