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 Ga0209674_100015

Scaffold Ga0209674_100015


Overview

Basic Information
Taxon OID3300025226 Open in IMG/M
Scaffold IDGa0209674_100015 Open in IMG/M
Source Dataset NameArabidopsis root microbial communities from North Carolina, USA - plate scrape CL_Cvi_mMS_r2 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)697299
Total Scaffold Genes662 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)450 (67.98%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Roots → Endophytes → Unclassified → Arabidopsis Root → Arabidopsis, Maize, Boechera And Miscanthus Rhizosphere Microbial Communities From Different Us Locations

Source Dataset Sampling Location
Location NameUSA: North Carolina
CoordinatesLat. (o)35.6667Long. (o)-78.5097Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F023378Metagenome / Metatranscriptome210Y
F034241Metagenome / Metatranscriptome175Y
F037289Metagenome / Metatranscriptome168Y
F040670Metagenome / Metatranscriptome161Y

Sequences

Protein IDFamilyRBSSequence
Ga0209674_100015110F040670AGGAGMNPLANRHNAAVDTGSPPADAPMQVLPWTEDSPRTIGAEDADTRYQGELFLPGWLKIELNPTAEQGPGG
Ga0209674_100015583F023378AGGAMSKTYVVSGCGMKFDAALWPVPAGVEIHFYFQCMREPQLYKTRTILDKLMLDVGMFPDRVAMPGDMIPSHFVWAHAGEQPPSGVFRRQTGNLAMDLADTDASRPVALSHIVKTLSADRSRSNTAIHWIVRDSEELADPSGLDCQYPPRLRAGGSDDGDESREMPLSGQMPLGQSRRMPLGMGPTEAWPGVRRR
Ga0209674_100015652F034241GGAMSQAKPRQYLGALRAALAAAKAVNKSRVAAYHVLPNGISCKMDWAGWSDPWYNATPRQQALLDVLQDLLDGGETEVPMIALKTALRLEIPESEILRSRDNVGADGESGYFFDDIMHGLYMLDAQETEQVFYGLIDRLMQPECGHAGLIDR
Ga0209674_10001587F037289AGGAGMSTWLSNQSVSFAVVALEGWRAMHHKAASLVRPSVLRRAQTQMVRLITVVAGH
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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