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 Ga0070703_10000013

Scaffold Ga0070703_10000013


Overview

Basic Information
Taxon OID3300005406 Open in IMG/M
Scaffold IDGa0070703_10000013 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-25-1 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)90254
Total Scaffold Genes81 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)60 (74.07%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria(Source: IMG/M)

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?
F037215Metagenome / Metatranscriptome168Y
F045081Metagenome / Metatranscriptome153N
F047826Metagenome / Metatranscriptome149N

Sequences

Protein IDFamilyRBSSequence
Ga0070703_1000001312F047826GAGGVLGCASVQRRVRTVLLVAVLLASTPVLLPSPAAAGRHPHHPCQLTRRDGERIQHFSERLIRCAVGAYGPVTGGATRAICIARRESGLIPSASSPKGKYLGLYQHSATYWPWRFTTYTQPSWMLSSSALSGRSNAIVTVRMVRGLGGWRRAGWPVKAC*
Ga0070703_1000001359F045081GGAVESDAVSVRAAYERFPVSVKGAFLLRGADGLPHQVRIESARAAECAGRGGRAIGLEAMVLEVAPTLDTFVPFEVPTMDLAAGWYRLECAVLVDGIPIVLHPGRPFAIPWPRSAVRRGSATIGKKAGGVAWETLECLGDSVRISFAADTTPVVKLVMDGAAHPVLEIEFDDASGHGRVIGYPALRSQQRLTIEGRGSEPVQVDLP*
Ga0070703_1000001378F037215AGGVLEITRTQVGVVTASATAGALDVLVVPGRAFVCRTADDELVLLCVPEVTDEVAREVATRLAALDPDALVIDATDGWAAVTVAGDGARASFGLLSRLQLPDAGLAQGEIAHVPAKVVAHGEQVLILAPSMWEAHLRDRVTKALGAARPLATRQWTVPRR*
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