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 Ga0075476_10059692

Scaffold Ga0075476_10059692


Overview

Basic Information
Taxon OID3300006867 Open in IMG/M
Scaffold IDGa0075476_10059692 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_22_N_<0.8_DNA
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1524
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (85.71%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

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?
F002733Metagenome / Metatranscriptome534Y
F016757Metagenome / Metatranscriptome245Y
F028792Metagenome / Metatranscriptome190N
F029934Metagenome187N

Sequences

Protein IDFamilyRBSSequence
Ga0075476_100596921F016757N/AVKVEATTTREVIVRANTEYEAQIKAQIDMVGLVGGENTKVIWAKVIPNE*
Ga0075476_100596922F028792AGGMSNRGDYKVRVRLTTEREVIVNADGFDDAEFKAIKEAIALVDGYDAEVLWALEHGSLSDWEKKDGNDT*
Ga0075476_100596923F029934GGAGMATILRTCLACNGGGIAEYDKPRVDHANGGWIDSTYGKCDVCDGEGDLHVLSEFTSLDILAFLHEAATILENADIVDSTLDDIYGHVKDAEDKIKEYIKFHGYDGDDR*
Ga0075476_100596925F002733AGGAGMAKQTKLWIELTPTEANALMVMLDGEMESRFRYEGLDLKEWETFDLEAYKLLAFRKFKKWYMENFDG*
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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