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 Ga0207676_10000007

Scaffold Ga0207676_10000007


Overview

Basic Information
Taxon OID3300026095 Open in IMG/M
Scaffold IDGa0207676_10000007 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS Switchgrass S7-2 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)591074
Total Scaffold Genes554 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)362 (65.34%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families2

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

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?
F001931Metagenome / Metatranscriptome615Y
F084590Metagenome112Y

Sequences

Protein IDFamilyRBSSequence
Ga0207676_10000007117F001931N/AMADEAIPSQRMQILSGVVQTLLDDLKSGTGDKDRRRQVEEWMRTLAEKYPEFKIETGLRDYYLAEAQRLRTDFDKSAELHEKLALGRSIESFLDRAADYDRRIAEK
Ga0207676_1000000766F084590N/AMTTDHPRNPEHDDSAAVLRRIRNISIAAWGGFAVFALISSGFAGFVGLTCSALVTIISFLWLEEIVEAVLQPTPHLRAWKVTLRTLARYALLGAAVSVTIYVARFNALSVLLGFSIVVVGIIGEAVYSTLRSWN
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