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 Ga0075029_100133960

Scaffold Ga0075029_100133960


Overview

Basic Information
Taxon OID3300006052 Open in IMG/M
Scaffold IDGa0075029_100133960 Open in IMG/M
Source Dataset NameFreshwater sediment microbial communities from North America - Little Laurel Run_MetaG_LLR_2013
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1512
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Sediment → Unclassified → Unclassified → Watersheds → Freshwater And Sediment Microbial Communities From Various Areas In North America, Analyzing Microbe Dynamics In Response To Fracking

Source Dataset Sampling Location
Location NameUSA: Pennsylvania, Clearfield County
CoordinatesLat. (o)41.170727Long. (o)-78.4726Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001528Metagenome / Metatranscriptome677Y
F003157Metagenome / Metatranscriptome504Y
F004392Metagenome / Metatranscriptome440N

Sequences

Protein IDFamilyRBSSequence
Ga0075029_1001339601F003157GGAGGMFDPDANQKRENTDLLGFARFGGLDRLDWVMILISVLLGTIAKQHHVLDLPDWLLEWVSPFLLMAFGYKARRKITEVVESRRDRGKDTHEE*
Ga0075029_1001339603F004392AGGAMPVNGPETIADSKTSQPVASEGRSVRATRDAKPAVGRGAATRRRRDRQEGSQTSGEERFFLASANRNGDVPTLGRECATEAEAIIEAFREKVNLYKVSEFQTRADIGRSGEPILRKETLKKNNPAS*
Ga0075029_1001339604F001528AGGAGMSEKNQIVVVLIVALFLGAFVDRITALNIVAGVVLLWTLQNQPVVFECIRKLFSFVQRRPSVREYR
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