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 Ga0070711_100008933

Scaffold Ga0070711_100008933


Overview

Basic Information
Taxon OID3300005439 Open in IMG/M
Scaffold IDGa0070711_100008933 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - LAR L5-3 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6152
Total Scaffold Genes15 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)13 (86.67%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: UniRef50)

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?
F011803Metagenome / Metatranscriptome287Y
F023966Metagenome / Metatranscriptome208Y
F044745Metagenome / Metatranscriptome154Y

Sequences

Protein IDFamilyRBSSequence
Ga0070711_10000893311F023966AGGAGGMDKNNRVLGRMGARELTEQEVDAVQGALRVHHTLTPCFIDKQKQLLNGDQAIGECGP*
Ga0070711_1000089337F044745AGGAGMNDLNRVLLRQGARALNDQEVAMVAGGLRTLTACTLAAAGTLDGDTFHSECGSPDQ*
Ga0070711_1000089338F011803AGGAGMNDDKRVLIRRGARELTPTETDLINGGFRTLSFCTSSPSPDGDQHVGEVGC*
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