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 Ga0207646_10004322

Scaffold Ga0207646_10004322


Overview

Basic Information
Taxon OID3300025922 Open in IMG/M
Scaffold IDGa0207646_10004322 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-2 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)15502
Total Scaffold Genes21 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)15 (71.43%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Agricultural Soil → Corn, Switchgrass And 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?
F013805Metagenome268Y
F033384Metagenome177Y
F055501Metagenome / Metatranscriptome138N

Sequences

Protein IDFamilyRBSSequence
Ga0207646_1000432213F055501AGGAGMVAREYHCVAMTTTGACIVVITLLGCVLAVTTASHAESAWMLWQQATVFTERWWIPNGWPAHWRTTEMPPVALSEFQALADCQLAQTQAMSRDADLAREVEAKETSGTSVARSVGRFACVPFGWQPRRIEPGGATREPKGKAHAISFGPPGTSAPGA
Ga0207646_1000432217F013805N/AMAGEITGFLHVMRVPARLDPVNAEYRIVFAPLGGRLRGRRVSCLGLDALTDFLRRAGVPIPEIERAWQTLVRRRVHSILRIALTPAQLEALEL
Ga0207646_1000432218F033384AGGAGMGVYADLRNFVLAHRTCAGSRHANAGPPTVDGYRVSVVCGCGAEFKRRVTLDDADEDLLKSALLAFEN
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