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 Ga0182004_10001123

Scaffold Ga0182004_10001123


Overview

Basic Information
Taxon OID3300014486 Open in IMG/M
Scaffold IDGa0182004_10001123 Open in IMG/M
Source Dataset NameEndophyte microbial communities from Sorghum bicolor roots, Mead, Nebraska, USA - 072115-40_1 MetaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)18876
Total Scaffold Genes36 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)24 (66.67%)
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(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Roots → Unclassified → Unclassified → Root → Sorghum-Associated Microbial Communities From Plants Grown In Nebraska, Usa

Source Dataset Sampling Location
Location NameUSA: Nebraska
CoordinatesLat. (o)41.1613Long. (o)-96.6752Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003222Metagenome499Y
F037038Metagenome168Y

Sequences

Protein IDFamilyRBSSequence
Ga0182004_100011234F037038GAGGVTVKLEQDLAAMDQGNCEERVRSRSMNQYNHVMI*
Ga0182004_100011235F003222AGGAGMRHDMESCDHSGEDQDEAWLVGLVARVKDKLEALKRGTTCDSEA*

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