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 Ga0070713_100016038

Scaffold Ga0070713_100016038


Overview

Basic Information
Taxon OID3300005436 Open in IMG/M
Scaffold IDGa0070713_100016038 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - LAR L8-2 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5624
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (87.50%)
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)42.4774Long. (o)-85.451Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F033469Metagenome / Metatranscriptome177Y
F035391Metagenome / Metatranscriptome172Y
F079724Metagenome115Y

Sequences

Protein IDFamilyRBSSequence
Ga0070713_1000160382F079724N/AMPEEYQLSFTLPEVKALIRALEECGVESGSPRTELEHFRSAQLVTAAKSAYEALKAKRQRIERLQ*
Ga0070713_1000160383F035391GGAGMGTLPPHFFVWLLYMHMSGHTTPIAGFKTEAMCMEIRDGMTSKANSAVKFKCDKFAIER*
Ga0070713_1000160384F033469GAGGMGMDSKTRELLTLWRDLSPEAKARMFEKARYLALSAGLEKTPEFAAFFELPVRDFNSDR*
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