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 Ga0075462_10017825

Scaffold Ga0075462_10017825


Overview

Basic Information
Taxon OID3300006027 Open in IMG/M
Scaffold IDGa0075462_10017825 Open in IMG/M
Source Dataset NameAqueous microbial communities from the Delaware River and Bay under freshwater to marine salinity gradient to study organic matter cycling in a time-series - DEBay_Fall_30_<0.8_DNA
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2287
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → Viruses → unclassified viruses → Circular genetic element sp.(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Coastal → Unclassified → Aqueous → Aqueous Microbial Communities From The Delaware River/Bay And Chesapeake Bay Under Freshwater To Marine Salinity Gradient To Study Organic Matter Cycling In A Time-Series

Source Dataset Sampling Location
Location NameUSA: Delaware Bay
CoordinatesLat. (o)39.283Long. (o)-75.3633Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001611Metagenome / Metatranscriptome663N
F002374Metagenome / Metatranscriptome566Y
F013311Metagenome / Metatranscriptome272Y

Sequences

Protein IDFamilyRBSSequence
Ga0075462_100178252F001611AGGAGGMPLVQKTLTLAAGATSDNILANTNYEFVDGNVRLRVASAVDTAGTSATSDTFLNVSVNNAEYSKDVSVPALVSGQPFGVLNGSYLNNDLLTTGSQRNRVLVRFTNDTGATRTIRCGVFIGG*
Ga0075462_100178254F002374N/AMNQVLLYASVLLAVVSFFLCLYACARVGKLLNSVKGLDWDTIACLTGDIGTIKKSIQTLNNRINGLNSPKLNDELLQYAIKQQNNVTDIRKNNIGG*
Ga0075462_100178255F013311AGGAGGLAFLGDFGKFFGLGSSEDVLGDVGGAVGAFIGGPKGQVIGTQLGKATGRATSNLAGDDISPLSTADQALEQSAVSVSQRGDVPQETSSNLGTTGVTMQAGFGAIPGAIQGLRALAPQVGKFFGGTTGAVATGLGTGVAVNALTGSGMRKEKPVLTQSRRNKARVRQLVNFMGIEGAASFLSQASGVSVTPNDVVMLLLRTFRNDGAFITKAQVRNLRRTTNRFKSLEKQVKEATSMTRTTRRAPVRRASSTTLI
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