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 JGI12053J15887_10015644

Scaffold JGI12053J15887_10015644


Overview

Basic Information
Taxon OID3300001661 Open in IMG/M
Scaffold IDJGI12053J15887_10015644 Open in IMG/M
Source Dataset NameMediterranean Blodgett CA OM1_O3 (Mediterranean Blodgett coassembly)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4214
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (100.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Forest Soil → Forest Soil → Forest Soil Microbial Communities From Multiple Locations In Canada And Usa

Source Dataset Sampling Location
Location NameEl Dorado National Forest, Georgetown, California, USA
CoordinatesLat. (o)38.88Long. (o)-120.64Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000673Metagenome / Metatranscriptome944Y
F021825Metagenome / Metatranscriptome217Y
F037404Metagenome / Metatranscriptome168Y
F097751Metagenome / Metatranscriptome104Y

Sequences

Protein IDFamilyRBSSequence
JGI12053J15887_100156441F097751GAGGMRSFLAMLFYIDHKCATQPGFRKTLLVFTLIFVFLLWSPWRPLLCPVFGVCPAPVVRADTTPQPKPQRPWMNHSKHLASPPAPVQIPAEHSVPAAPRQ*
JGI12053J15887_100156442F037404GGAMTTGVALDLKRITAEVAARHGMLLRPDDPAMLLVTMNEVVLQQVIGXIEARTEEIVAGIEAQFRSAQREALGNIEREARKAGIAVREEIQKDIDAGRLHARELIVELNRAYTRSAVRRWVAIGVVAASGLLVLGVGLGALLARVLK*
JGI12053J15887_100156444F021825GAGGMGKGYQHCLDKLAAAAPETKSALIRSLLPGIEAALNSGQRLKAIWKALQKEGLQISYRGFHMTVSRARKMKKPTATSIWRKQDKSPAAQGTPETKVGAGEERDPFANLKRLEENRPGFHWRGTRNVKTSVNGREDSSDKHS*
JGI12053J15887_100156445F000673GAGGMAKPRTERSLLFPSEEFREQVRNAAKDRGFRSEQAFILAACENELRRGENTDATTQFEARVAATLTNLAKQVHGLQTLAHAQVALTDVFLKYVITCVVEPPEDALPAARVRARLRYEKLVRAAAEGISNKNRDTLKGMVADE*
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