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 Ga0214488_1000019

Scaffold Ga0214488_1000019


Overview

Basic Information
Taxon OID3300032467 Open in IMG/M
Scaffold IDGa0214488_1000019 Open in IMG/M
Source Dataset NameMetatranscriptome of phyllosphere microbial comminities from switchgrass, GLBRC, Michigan, United States - G5R3_NF_31MAY2016_LR2 (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)8229
Total Scaffold Genes13 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)10 (76.92%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Panicodae → Paniceae → Panicinae → Panicum(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Phyllosphere → Unclassified → Unclassified → Switchgrass Phyllosphere → Phyllosphere Microbial Comminities From Bioenergy Crops Switchgrass And Miscanthus From Michigan, Usa

Source Dataset Sampling Location
Location NameUSA: Michigan
CoordinatesLat. (o)42.39Long. (o)-85.37Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F051649Metagenome / Metatranscriptome143Y
F063245Metagenome / Metatranscriptome129Y

Sequences

Protein IDFamilyRBSSequence
Ga0214488_100001913F063245GAGMDKLVKVSIYLLETASRLCPYIKDKDVTCIVFLMENCVSYPEEVIQVGMNL
Ga0214488_10000192F051649AGGAGMKLEDNSGSTRTWIDLKPISTQIGTPLAQPLFGLRNSSSTYKQMIRSIYENTLDHLLCGKNHSVTASREKPVFDVYLDPVESSQDSLDFITNALAKIQLESCQSHTLAKLLDNLREVASIDDLPFQHPS

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