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 Ga0163162_10174011

Scaffold Ga0163162_10174011


Overview

Basic Information
Taxon OID3300013306 Open in IMG/M
Scaffold IDGa0163162_10174011 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - S5-5 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2278
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
Not Available(Source: )

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
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F026604Metagenome / Metatranscriptome197Y
F081522Metagenome / Metatranscriptome114Y

Sequences

Protein IDFamilyRBSSequence
Ga0163162_101740112F081522AGGAGGMTPLLRMAALVVAALTVSASAFAPSSLTLASTAGDVNLDGSETRGTVPAGNLPLPAGSPTSITVTFNDVSPEQVVASDRYLGVGLTIETSLDDVVEGSLNAVPCDGTRSIKTASFTGPFLLRFPHGVTSVSLDAGDIGSSDSDVIMVKAYSDDALQTLIATDIGSLAQGAPTGCVRLSVQAPEPEVAVIKAVAITADGVYVFSSNSPSGVASYPNSNP*
Ga0163162_101740113F026604AGGAGGVQQRRTQPLPTVRAEQGQGIVLLAHGEPYDPCPVAGCRGTLLFLRR*
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