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 Ga0233426_10016773

Scaffold Ga0233426_10016773


Overview

Basic Information
Taxon OID3300022920 Open in IMG/M
Scaffold IDGa0233426_10016773 Open in IMG/M
Source Dataset NameSeawater microbial communities from Saanich Inlet, British Columbia, Canada - SI_118_April2016_10_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)4215
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (77.78%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria(Source: IMG/M)

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)10
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002915Metagenome / Metatranscriptome521Y
F004166Metagenome / Metatranscriptome450N
F006870Metagenome / Metatranscriptome363Y
F007087Metagenome / Metatranscriptome358N

Sequences

Protein IDFamilyRBSSequence
Ga0233426_100167734F004166N/AMKKLILLLLLVPLISCTDHQANDSWGSYATNKETQKQEFWFTSYKTREECIADMSWQLEGEDDPNKKRISNLHTKPYGCHFMSNNKWLSMYYYLVYRDEGLGCLWESSNPNVRIKYSVTLKTFVIAPEQGRCILGD
Ga0233426_100167735F002915AGGMKRLLLLSLIIPIIAQGKEVFTNEQGLKIEYVKPSVSCFYDKEAYEGYLNTCLMLPNYETCAQTKYENYICIDQNMIKQLETKAKEAG
Ga0233426_100167737F007087AGGMKKIILIALTIPNFVLADEIKLVCEGEESNYRNDVLETTSKTSLKLQVRDDSIVIDSMTYKSKTFDYGAIKGSSKYVKEDKQIVLETTQVSNECDTALLNVKLNRSNGMIESTAKRIGACDGSSFTTSTKFKGKCK
Ga0233426_100167738F006870AGGVQVTSKLKKTAKSCELPLIAFLYLIYHMKKISLFFLLTLSLVVTSKASSLETKLSPQGSDKYYFHIKGDDKSSEKKLRDVFQNKVNEVCGTRFEIISITTYQINKEGVKNNVLDGSFKCFVNSQM
 ⦗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.