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 Ga0070667_100923655

Scaffold Ga0070667_100923655


Overview

Basic Information
Taxon OID3300005367 Open in IMG/M
Scaffold IDGa0070667_100923655 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS S3-3 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)813
Total Scaffold Genes2 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Soil → Unclassified → Switchgrass 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?
F040753Metagenome / Metatranscriptome161Y
F040799Metagenome161N

Sequences

Protein IDFamilyRBSSequence
Ga0070667_1009236551F040753AGGAGGMKKLTQAGLAVLIAGLVLLLKGSSPLVTTATAQTQNKAQQQEKESTRDAPPDLTPYVRSTVPEEGGPRAIKAFLPIPGGFIVDAVVSNT
Ga0070667_1009236552F040799N/AFIIILTTFIVKEEAVSMHQEARGPVYTNEKFGYTVSYPDHWLPSRLQYANEFEIRNYVSEDPQVPARNRALVRIVDKVNESAEVTDRFLDNLVVGQNTPKQEHQTLAIDGHRAVRVRGTLAYPTGSSIDTPTFYLAISTYIADEKHMVSLEASAPVDVDESVIQEIIKIEESVKFDKGG*
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