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 Ga0208546_1001622

Scaffold Ga0208546_1001622


Overview

Basic Information
Taxon OID3300025585 Open in IMG/M
Scaffold IDGa0208546_1001622 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_Sum_0.19_D_<0.8_DNA (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6929
Total Scaffold Genes14 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)11 (78.57%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes(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?
F002540Metagenome / Metatranscriptome550Y
F003377Metagenome / Metatranscriptome490Y
F012767Metagenome277Y
F066715Metagenome126Y

Sequences

Protein IDFamilyRBSSequence
Ga0208546_100162210F002540GGAGGMQYEATPAELEKYGAGLNIWQQIQLLQTWAPLIGYAQRFNAASDPYAKSVVVAEAAEWVASKTSATVDDQLVKLLGDLLRTPQGEALVRWCLLQVEAAR
Ga0208546_100162211F012767GGAMRGSTATISLTAFRADWMTHLPMRELCCRYTISRDQVIRLKHVWQLPPRHDRKLRAKPKRVPDPTTTEIQIRCLEIQATWSDDVRELRRVVKTQPVTLQRFELSEDAEHRLSDWDGSYFD
Ga0208546_10016222F066715AGGAGMAESKISRINRDIDITLHTATALATTLDVRDVAGAVVSFGTMSTNATSLQMWVGTSTAGTFRRLYKADGSVADLTLSASSTDGRAYALPDEVFGAEYLKIVSATTNSTGTSGIVMLKS
Ga0208546_10016225F003377GGAGGVTDAAKDTVFSILERWGFPTLVALAAGWVLRHDVLLPLVDEHRSFVKSLSETQREISKAVTEQTRLLYEMKQMRSEP

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