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 Ga0209481_10010872

Scaffold Ga0209481_10010872


Overview

Basic Information
Taxon OID3300027880 Open in IMG/M
Scaffold IDGa0209481_10010872 Open in IMG/M
Source Dataset NamePopulus root and rhizosphere microbial communities from Tennessee, USA - Soil MetaG P. deltoides SBSDD3 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3919
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (66.67%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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

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)35.8443Long. (o)-83.9607Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F005634Metagenome / Metatranscriptome394Y
F025100Metagenome / Metatranscriptome203N
F029859Metagenome / Metatranscriptome187Y

Sequences

Protein IDFamilyRBSSequence
Ga0209481_100108722F025100AGGAGGMSRVYSEQQLDHYLAIMDRIAELWWQQFPERAVYSPGYWHLFMGLYKNRKHAITKGEAAEFLTAAQIKSPATRAKVIAGAIKLGYVSEQQSHVDKRANLVTMTPKLERKMQEYLSASLQVMSEALQSIHKG
Ga0209481_100108723F005634GGAGGMRPSDVAKAMGGGLLGTLVQTIIVYGVAPLLAGPSMAGAAITGHACAPSLLVHLLSGSVLFPLGYVWLSSRAFAGPPVLQGMLWAALLWCVAEVIIAPMLGVEVLSTALGGVPAALRALLGYLVYGATLGSVAGAVQPEDRYASHA
Ga0209481_100108724F029859AGGAGMLTRVVTGQYCSVHQLLFVSALQAWLSVSPTHIAQTYGDAMRVVEAPCPRCLALTQSALHRQFPALYAPSSRGS
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