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 JGI25921J50272_10005554

Scaffold JGI25921J50272_10005554


Overview

Basic Information
Taxon OID3300003430 Open in IMG/M
Scaffold IDJGI25921J50272_10005554 Open in IMG/M
Source Dataset NameFreshwater lake microbial communities from Lake Michigan, USA - Su13.BD.MLB.SD
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3947
Total Scaffold Genes14 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)11 (78.57%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Unclassified → Freshwater Lake → Freshwater Lake Microbial Communities From The Great Lakes, Usa, Analyzing Microbial Food Webs And Carbon Cycling

Source Dataset Sampling Location
Location NameLake Michigan, USA
CoordinatesLat. (o)43.1998Long. (o)-86.5698Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002598Metagenome / Metatranscriptome544Y
F004051Metagenome / Metatranscriptome455Y
F006744Metagenome / Metatranscriptome365Y
F017995Metagenome / Metatranscriptome237Y
F021481Metagenome / Metatranscriptome218Y

Sequences

Protein IDFamilyRBSSequence
JGI25921J50272_100055541F002598N/ALPMATKLYTIESLLVGKNYRSNSRHFSGEIVSAEARPEIYYGEKTEAYLIEINAGGLRNKFATIAVKVGE*
JGI25921J50272_1000555410F004051AGGAMTVGNKTYQVGDLFTTLKSKETGVISEIIQNASGSVRVRLTTDNGERWTTVSADSMA*
JGI25921J50272_1000555412F021481AGGAMSPILDTAKGRFYRKGDVFTTGKSGITGTIAEIVAVRPNLTKLGLNTENGLRWAMVKIGA
JGI25921J50272_100055543F006744AGGAGMNLDEFKKHVIAQREASKAEALSVLSATIAKSTNEGENLNG*
JGI25921J50272_100055544F017995GGAMAKMKEYVEIIAANCDECGGAGFLFWGTENNYDVEPCSCVDEISDELTLDWVNN*
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