NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
x
This website uses cookies to improve user experience. By using NMPFamDB you consent to all cookies in accordance with our privacy policy. OK
Scaffold Ga0233427_10006789

Scaffold Ga0233427_10006789


Overview

Basic Information
Taxon OID3300022933 Open in IMG/M
Scaffold IDGa0233427_10006789 Open in IMG/M
Source Dataset NameSeawater microbial communities from Saanich Inlet, British Columbia, Canada - SI_118_April2016_100_MG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyRestricted
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Note: The use of this dataset is restricted, as per the data usage policy of the Joint Genome Institute (JGI). Utilizing any of the sequences below requires obtaining a license from the dataset's corresponding author(s).


Scaffold Components
Scaffold Length (bps)8726
Total Scaffold Genes20 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)12 (60.00%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (66.67%)
Associated Families6

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Inlet → Unclassified → Seawater → Methane Metabolizing Microbial Communities From Different Methane-Rich Environments From Various Locations

Source Dataset Sampling Location
Location NameCanada: British Columbia
CoordinatesLat. (o)48.5847Long. (o)-123.5008Alt. (m)Depth (m)100
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002078Metagenome / Metatranscriptome596Y
F010167Metagenome307Y
F013820Metagenome / Metatranscriptome268Y
F015741Metagenome / Metatranscriptome252Y
F022754Metagenome / Metatranscriptome213Y
F029783Metagenome187N

Sequences

Protein IDFamilyRBSSequence
Ga0233427_1000678910F015741N/AMGCSGLPLVELIPPVFNFALGFYDHNDYYSKECLWYDEVRLNDDTKKWLLESNPPEIVSKDLAQVSRNNDLYKEVCKKDKGVVDKLKGKTERLLKKDE
Ga0233427_1000678913F029783AGGAGGMIGELSGDTADFLNEIPWFDGIIYILMLMGLYVFYKWVNSKFQ
Ga0233427_1000678920F010167GGAGMIFAHTSLIQEGESALFYRFSRPLNGYMIAGVFVNDNVEAKMSFAKVWTYFVSEIVQADDIYASIPLGVANSMFDNYCEYHDTIEGLKIYKVDNFLKKQYSNYDKHIERAGSDT
Ga0233427_100067897F013820AGGAGMTVMISTIIGFIDKAIPGYKTYALMLIGALMMGCQMMGFHSFSQEAWGLLGIGGAATWKMGTDRDPVVKKK
Ga0233427_100067898F022754N/AMNELIITIMLVIPSPSKIVNWSVNKVPTQIQIIHESGLEVSYNAAPVACSFRPRHAKEMVFRSPNNRCYSVYDLSSPRFVRHPDHWYKIELPQ
Ga0233427_100067899F002078AGGAGMDIAAMFEGQGWFAIVGQIVLVFTAITGSLPDKFVQKIPVLGTIWPIFNWLAGNVFNNINHPKGMAAQNDVEKEIDEAKAKIRDRSGMPDVLDGM
 ⦗Top⦘



Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
© Pavlopoulos Lab, Bioinformatics & Integrative Biology | B.S.R.C. "Alexander Fleming" | Privacy Notice
Make sure JavaScript is enabled in your browser settings to achieve functionality.