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 Ga0207641_10056684

Scaffold Ga0207641_10056684


Overview

Basic Information
Taxon OID3300026088 Open in IMG/M
Scaffold IDGa0207641_10056684 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS Switchgrass S6-2 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3330
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizoplane → Epiphytes → Unclassified → Switchgrass 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?
F003236Metagenome / Metatranscriptome498Y
F004687Metagenome / Metatranscriptome428Y

Sequences

Protein IDFamilyRBSSequence
Ga0207641_100566843F004687AGGMRAALSPVSFSIRSSSAITCTRSVFPAHARATRLAAAYLLFTVAMVMVPTADIPETLLDEANTPANEIVVEKAASSWEHRQLVPAFVPRIFAQPRRTTFRRISQVHTGRPSDSRTFRELFCSLIC
Ga0207641_100566844F003236AGGAGMNHKITSGGLVSLCLMVAFTILLTSVPAEAAHCSTAASAGMWDYTYTGTIFTSSGPLPAASVGHFRQDAAGKLSGSQTRSVAGGSGVEDISGNITVRGNCTATATINVLVKGELQRTAVLAVTFDNNMNHGRGIFKSLVLPDGTNVPVVITSDNTRVFPKN
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