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 Ga0075386_10005405

Scaffold Ga0075386_10005405


Overview

Basic Information
Taxon OID3300030916 Open in IMG/M
Scaffold IDGa0075386_10005405 Open in IMG/M
Source Dataset NameForest soil microbial communities from France for metatranscriptomics studies - Site 11 - Champenoux / Amance forest - FA12 EcM (Eukaryote Community Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3176
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (66.67%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Forest Soil → Soil → Forest Soil Microbial Communities From France, Sweden, Spain And Usa, For Metatranscriptomics Studies

Source Dataset Sampling Location
Location NameFrance: Champenoux
CoordinatesLat. (o)48.7585Long. (o)6.3578Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003187Metagenome / Metatranscriptome502Y
F011966Metagenome / Metatranscriptome285Y

Sequences

Protein IDFamilyRBSSequence
Ga0075386_100054051F011966AGGAGGMADKPVDTEGALADLGFGNQYFDRWFKQKPSEQKKETFSLVLKYIEEARKKDPSVTLQVKSGRGEVKQVTPDSLAAAMYLAHGSYEAFNDQTAAGRLRGREHLHKSIAILPMPVAFADLARAYISENDRAKALEIASAGQQQYPDSFEIRQVMDMMKSDKKLGAKPTNRRVVMLVLGALLFLGGWIVLWVADATRGGQPMSKTIFVIAGAGWVLGIIFFFISMKSPPQE
Ga0075386_100054055F003187GGAGMRKLLVAACSIVLALGLAGCIGKAPVGKGKAPVVQTRG
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