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 Ga0070708_100027472

Scaffold Ga0070708_100027472


Overview

Basic Information
Taxon OID3300005445 Open in IMG/M
Scaffold IDGa0070708_100027472 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-3 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4884
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (75.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria(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?
F001175Metagenome / Metatranscriptome756Y
F001699Metagenome / Metatranscriptome649Y
F018903Metagenome / Metatranscriptome232Y

Sequences

Protein IDFamilyRBSSequence
Ga0070708_1000274723F001699GAGMILLRHFFVALLPLVFGLGASWGFAFSQSKCGRLVGPIFAPKCHWIQLEYQLGFQMGGTLLGCLIAIFLGAWLERRSRRRVERATLNQGASA*
Ga0070708_1000274726F001175GGAGMRAVIAALVCVVAACGPSNPCSGHQFDRLRRYSLPYAGHWVVVRGDTLTFPDAPPMSDRFRLGDITLDTTTILVDRDCIFRGQIVFRAPRAETLAVSWFGQPEQAIVSGWPADLGPFAGLSLAPSGRDSMSGTILIDSKLGVQARPGMTARFVAGRAHRLSSHP*
Ga0070708_1000274727F018903AGGAGLQVYAGSLKLPAMKSILWVVPICLIAACGSSDKSSQTVNRDTLTERQKDSILAGSKIPGARAVGRAMTAADSMSARVHQSDTVARDTTEL*
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