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 Ga0207643_10028192

Scaffold Ga0207643_10028192


Overview

Basic Information
Taxon OID3300025908 Open in IMG/M
Scaffold IDGa0207643_10028192 Open in IMG/M
Source Dataset NameMiscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS Miscanthus M6-2 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3117
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizoplane → Epiphytes → Unclassified → Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameUSA: Michigan, Kellogg Biological Station
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F030490Metagenome / Metatranscriptome185N
F033100Metagenome178Y
F075776Metagenome / Metatranscriptome118N

Sequences

Protein IDFamilyRBSSequence
Ga0207643_100281922F075776N/AVEPGNHRFECLTRTALNVTIGTLMHGATHTEPEAAQAPVEVEGDEPSLAWPEADPRWLLIPETEDDSEAGRRDPVQAIEAFNRMLADRQRESPTEVRAPQ
Ga0207643_100281923F033100GAGGMRANLPEKLGSRRGSVLGYLPGGALATLGRILPLAAGVSQGVRRLGLVGLAAAAAIALIVLVRWTPGDSEGWAGLAVLAILLAVPAAVLFAFSVFLGEIVELPDKLRNYPGLTREHAAELQAIAQDAKARERPAWRRLPGSTWRLATLVRSARELLAPHAPLLPLLNVPFLVATVVAALLVPLVALAALLVFLAAVA
Ga0207643_100281925F030490GAGGVLHDHLERLGVSSFWLRSALDAIHYCEQGDFFQPVFSVAGPAPARSVVALMRLEPFVRAEIDWTISPSESPFWVGSVGELQDELFDATASRFLDLYWSDRNPSVRPDLDEAFRDMVTFAQGEPPEATPAQDEDARHRRWALGSAGYVWRVAESTARTSDLDLRAALEKEVEAVVESFPRGEPEERFLAWAATECVNRNLLFGSASPGGWASGGEFLRRGFRFAERHVFSEDVTLPLKDQWYAFSFGVALYDVDAFLATRPPRRAGRADGRSRLNPQAAR
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