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 Ga0207677_10000001

Scaffold Ga0207677_10000001


Overview

Basic Information
Taxon OID3300026023 Open in IMG/M
Scaffold IDGa0207677_10000001 Open in IMG/M
Source Dataset NameMiscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS Miscanthus M4-2 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)534789
Total Scaffold Genes523 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)297 (56.79%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizoplane → Epiphytes → Unclassified → 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?
F002324Metagenome571Y
F013826Metagenome / Metatranscriptome268Y
F025120Metagenome / Metatranscriptome203Y

Sequences

Protein IDFamilyRBSSequence
Ga0207677_10000001253F002324GGAGGMGEIKLFQICYEGDLTVEVSQIMRRLGAEPNFDQSWQVWLPEGRHAAPLVRYLRSKLGDDARLLVACAQFTTARDFLLVRHSLTPGADYSELHEALDRLGVFVPLPFDSTFVIQSDDRTDVQTLGAALSELCPDDSLMINGISHDWAFCDAGMSRMYVADAVEELTFRTF
Ga0207677_10000001255F013826N/AMAVCWRCPRCGEVSCEDDAKAEGLPLACDHCERPFLPAETQCTVCDAPNPWSRRDSLHFWCRECGNTQTFYGFTTQAGTTTTGASGPR
Ga0207677_10000001336F025120N/AMGFALPLTLFFLLGLHTASQFFTVAVSAFLAWGVSDLLASILERPRLQDRSPGRALREDLERRQNE
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