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 Ga0207697_10029202

Scaffold Ga0207697_10029202


Overview

Basic Information
Taxon OID3300025315 Open in IMG/M
Scaffold IDGa0207697_10029202 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA, with PhiX - S5 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2256
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families3

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizoplane → Epiphytes → Unclassified → Corn, Switchgrass And Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameKellogg Biological Station, Michigan, USA
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000255Metagenome / Metatranscriptome1449Y
F037084Metagenome168Y
F044848Metagenome / Metatranscriptome153Y

Sequences

Protein IDFamilyRBSSequence
Ga0207697_100292021F000255AGGMGWTRCFGCEKLQRDFVAQTFALIAPVQYVLQQVSCSYETIPNAPKYYEMHQNISLGCKWGRLGAFVAKNPNVTSWHELLH
Ga0207697_100292022F037084AGGMGWVGCIRFKKYRRDIVARTFALIAPVHPVLHQVSCSYETIPNAHKHYETHQNMSLGSNGVDQVRSLRKIQCDFVARTFVLIEPVQYVLKQVLCSYRTIPNAPKYNETNRNISLGSNGVHWVYSLQKILK
Ga0207697_100292023F000255AGGMGWIRCVGCEKLQRDFVARTFALIEPVQYVLQQVSCSYGTIPNSPKYYKTDRNISLGSNGVGWVHSFQKIST
Ga0207697_100292024F000255AGGMGRIGCIRCEKSRRDFAARTFALIALVHPILHRVSCSYETIPNAPKHYERLQNMSLGSNGVDQVCLLGKITT
Ga0207697_100292025F044848N/ARVSCSYEKIPNAPEHYEMHQNMSLESNGVDQVRWLRKITT
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