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 Ga0070699_100002350

Scaffold Ga0070699_100002350


Overview

Basic Information
Taxon OID3300005518 Open in IMG/M
Scaffold IDGa0070699_100002350 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K1-50-3 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)16991
Total Scaffold Genes22 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)18 (81.82%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Archaea(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?
F006236Metagenome378Y
F019298Metagenome230N
F022381Metagenome214N

Sequences

Protein IDFamilyRBSSequence
Ga0070699_10000235020F019298GGAGGMTFTAQRLLDTTPRWLSITLVSTSSALLISGVGFVLNLFDPFNITPFTLLLHLVWAIVVSSWVLNLKVKLPAEKRALLAIGVAVAVGSIWGAVQQWAAYLQAGVVNDITLVAGAVAMDAVGGLVVYILYHLNILGRKIGSSGP*
Ga0070699_1000023507F006236GGALKIPPGTGLLLVGSGLYWVLSGPLIGWFSVLNPTQIHLSQTGLTLLLVTGIACLVLGLWILPTDLEELSNLFSRNDGWIFIIPIGLVVADTYLTLIGLSQGNWELNPFVASAVQVGPWAVVPFVVSYLALSEGLALGMLSVGKWLFGVMRPSRFMPFALTCGAASFGPLSNADLLALPGVGPGTSFVVTVVGVVTLTVGIYAHFGKFELGRSPRSFS*
Ga0070699_1000023509F022381AGGALDLTVLAVSIIGVAVTAGLIYYSLRTLFLFKRNVAARAWVYICLSAIFSSVGVVAFLIESFAPMGLLPLGGVLETVGASILFLGLRKNFLFWASKDHFD*
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