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 Ga0207428_10001233

Scaffold Ga0207428_10001233


Overview

Basic Information
Taxon OID3300027907 Open in IMG/M
Scaffold IDGa0207428_10001233 Open in IMG/M
Source Dataset NamePopulus root and rhizosphere microbial communities from Tennessee, USA - Rhizosphere MetaG P. TD hybrid SRZTD1 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)27428
Total Scaffold Genes23 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)14 (60.87%)
Novel Protein Genes1 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (100.00%)
Associated Families1

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Populus Rhizosphere → Populus Root And Rhizosphere Microbial Communities From Tennessee, Usa

Source Dataset Sampling Location
Location NameUSA: Tennessee
CoordinatesLat. (o)35.8444Long. (o)-83.9599Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F009755Metagenome / Metatranscriptome313Y

Sequences

Protein IDFamilyRBSSequence
Ga0207428_1000123314F009755AGGAGMSRLKVWCAAACLAFAAGSSGIHASGGNQRTLVVTMTNDPTANEIRVYDADSHVLVQTLSTHGQGGVGGNARGIKQHEGRLIAVVNNGSNSVAIFRRDGDLLKFDTIVTTTSAPVSVDFGNEHLYVAGATTVDSFDLHQRSVAGLDGTTDLALASGGIPPAGSTAQVGVISDEQLLVTLKADPDPGTVDLIALDHGRIAGSAATAVSAPDGTLTPFGFATDADGTALITLAHSNHDGLFRDGSFASVIAAGQAASCWMTRVGKYVFVANTGSRSISRLVGTGNNVFVDGLIAAQITTGAPADIDADAGVLGVIDHGAGQSHLWVFSYNQFGELSPAGTIITIGVPDANGVAILSPRADER

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