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 Ga0182027_10038214

Scaffold Ga0182027_10038214


Overview

Basic Information
Taxon OID3300014839 Open in IMG/M
Scaffold IDGa0182027_10038214 Open in IMG/M
Source Dataset NamePermafrost microbial communities from Stordalen Mire, Sweden - 712E1D metaG (Illumina Assembly)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6146
Total Scaffold Genes13 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (46.15%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Wetlands → Permafrost → Fen → Permafrost Microbial Communities From Stordalen Mire, Sweden

Source Dataset Sampling Location
Location NameSweden: Stordalen
CoordinatesLat. (o)68.35Long. (o)19.05Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003186Metagenome / Metatranscriptome502N
F006929Metagenome / Metatranscriptome361Y
F023143Metagenome / Metatranscriptome211Y
F093113Metagenome / Metatranscriptome106N

Sequences

Protein IDFamilyRBSSequence
Ga0182027_100382141F006929AGGAMARFQTIIKSARFVYSPYNAVEMQGFAQVLADSIRLRIQNGHNIYDQAAAPLKPGMPGRRGYPDYKAARGLNPIRDWTWSGHTLRCLKVLTANENRAAIGFLDEA
Ga0182027_1003821411F093113N/AVEKTPVNAPEFQSAGPQANFKGTYPSKQKQFLSAVQTGTGASQNIAHGLGAVPAGVLISCTDNSGSSNVFTVTEGTHDTTNVKVTVTTGAKFKVLAWL*
Ga0182027_100382147F023143AGGAGMDWVFMQSPEGEVREVEATAAALTPLMVAGWHQVPPPVTTNQKPPTAAEEKK*
Ga0182027_100382148F003186N/AVINPKTILGEWVTALQSCPDLVTAIGGDGGNVRAFMEGLATDNNLRLAILQMPPGSMLVAWNGTTPRRLTGGALHFAHRFSIYLRAPEQNSTATYADLFWLLVSAIPTGAPSWASLLHFQIDPDCYPMDMDLPSAQRNTVVVSADGATLDYFEVQATLVEQGNPGGE*
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