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 JGI20218J20341_1011102

Scaffold JGI20218J20341_1011102


Overview

Basic Information
Taxon OID3300001808 Open in IMG/M
Scaffold IDJGI20218J20341_1011102 Open in IMG/M
Source Dataset NameWetland microbial communities from Twitchell Island in the Sacramento Delta, sample from surface sediment Feb2011 Site L1 Bulk Metatranscriptome (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)882
Total Scaffold Genes2 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Novel Protein Genes1 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (100.00%)
Associated Families1

Taxonomy
All Organisms → cellular organisms → Archaea → Asgard group → Candidatus Lokiarchaeota → unclassified Lokiarchaeota → Candidatus Lokiarchaeota archaeon(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Wetlands → Sediment → Wetland → Microbial Community Impact On Carbon Sequestration In Managed Wetland Carbon Farming

Source Dataset Sampling Location
Location NameTwitchell Island, Sacramento and San Joaquin Delta, California, USA
CoordinatesLat. (o)38.1067Long. (o)-121.6464Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F092888Metagenome / Metatranscriptome107Y

Sequences

Protein IDFamilyRBSSequence
JGI20218J20341_10111022F092888GAGGVHEQGFLEQNQNLFTLQVRRNSGMIYFLAIGVCFTIVSYVLIQAMVSSHPVVVSPVFEPVSSIVLATVGYIGFLTGWKEITITVNNLEKRFTATTRNLLTRTSKKREATFSEIQTMRGTVDEHTNCVKVTIARDNQEAIHFQLDCNSYGPLEKYLKTLLPSIPIITRDTGFYEAGMLPGHVSAVY*

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