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 Ga0115103_1574190

Scaffold Ga0115103_1574190


Overview

Basic Information
Taxon OID3300009599 Open in IMG/M
Scaffold IDGa0115103_1574190 Open in IMG/M
Source Dataset NameMarine eukaryotic communities from Pacific Ocean to study complex ecological interactions - MBTS_5May14_M1_3um Metatranscriptome (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2995
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (37.50%)
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 → Unclassified → Unclassified → Marine → Marine Eukaryotic Communities From Various Locations To Study Complex Ecological Interactions

Source Dataset Sampling Location
Location NamePacific Ocean
CoordinatesLat. (o)36.754Long. (o)-122.0208Alt. (m)Depth (m)5
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F006845Metagenome / Metatranscriptome363Y
F012117Metagenome / Metatranscriptome283N
F013088Metagenome / Metatranscriptome274Y
F018155Metagenome / Metatranscriptome236Y

Sequences

Protein IDFamilyRBSSequence
Ga0115103_15741901F012117N/AMEKYIMDILGGMSSSNESQQVYLAFKTSHQQFFANGETPVDFQYLQLDPATFKSGWGRYTKADGFEYAWDDKFGVVNPKPADDYKRAFSAWVMPQGAQHAYLWQRFTYAESSAFNSILGGFWNQMQPSLFNLPVVKYEGSKPIQVGMGNSSELSFRFAKFAPRADGFVIPSWYTDQEAPV
Ga0115103_15741902F006845N/AMDLNSYLLQEDFEEFCRKAYERINIACDVFGIVNDEDYYSFKERCYTQLETDYLNSIDKTIH*
Ga0115103_15741904F018155AGGAMGQNSKAVAKRREELKAEKLDKQLAYYYFQKGAGTHYREIQYASGKIVRTDFND*
Ga0115103_15741905F013088AGGAGMDEKTKKALWISEELHKEIKIFAIQNNMTIESASQMVLKLGMCSYKDSNGSK*
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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