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 Ga0208424_1000892

Scaffold Ga0208424_1000892


Overview

Basic Information
Taxon OID3300025445 Open in IMG/M
Scaffold IDGa0208424_1000892 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_0.3_>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)3438
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (81.82%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
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?
F002037Metagenome / Metatranscriptome600Y
F011384Metagenome / Metatranscriptome291Y
F024784Metagenome204Y
F093530Metagenome106N

Sequences

Protein IDFamilyRBSSequence
Ga0208424_10008925F093530N/AMRNVYASHTDFGFLRGVILDNPKAMPSNIDMVFERRGNFLIGEWKRENEDISLGQKILLKALADQDKFTVLVINGYSDDTGTEVNNFYKVTQNKLAILGNGVEGLKDYIDAWYQSSIGVSSP
Ga0208424_10008926F002037N/AMSKTYWVFIIVMAALAIFWTEETFSQTTTILAPDGSVTVCQVGSNGIVICV
Ga0208424_10008928F024784GGAGMGRAEKILEVIVWLLIVGGMGWFAYGCYELIDLFFLRG
Ga0208424_10008929F011384GGAGMYTKLDDQRQAKFVIGYITAHPGCSIKEIVQECVIARTRLKYLESEGYLILPKWTYNNTLDKRFKNRTYVSVTVGREYGKWDEQKRY
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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