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 JGI26084J50262_1009214

Scaffold JGI26084J50262_1009214


Overview

Basic Information
Taxon OID3300003427 Open in IMG/M
Scaffold IDJGI26084J50262_1009214 Open in IMG/M
Source Dataset NameMarine microbial communities from expanding oxygen minimum zones in the Saanich Inlet - ESP_116LU_22_DNA
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3968
Total Scaffold Genes15 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (46.67%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Intertidal Zone → Unclassified → Marine → Marine Microbial Communities From Expanding Oxygen Minimum Zones In The Northeastern Subarctic Pacific Ocean

Source Dataset Sampling Location
Location NameSaanich Inlet, British Columbia, Canada
CoordinatesLat. (o)48.6Long. (o)-123.5Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002495Metagenome / Metatranscriptome554Y
F005537Metagenome / Metatranscriptome397Y
F008307Metagenome / Metatranscriptome335Y
F043149Metagenome / Metatranscriptome157N
F065797Metagenome / Metatranscriptome127Y

Sequences

Protein IDFamilyRBSSequence
JGI26084J50262_10092141F002495N/AFPYDANNEKAIKIDFSGNVILDNGNKGTILGSKAQSKDGKSKFVRVFAQIGVLFKGDDKFTGEMNYPDAGGQKGLIGWLNDEGTILSGYKNEPRPKQGKAQSKEIPF*
JGI26084J50262_10092143F005537N/AMFLLTFAKTDKEIMSDNVKFINELERLLNQKQSDYGHFDNTSFVMAGILEKYLSVYNNKEVKVPLKFFGIFMIFLKLWRVMQSENYKKDSFDDINGYAELLRRLVINDENSKK*
JGI26084J50262_10092145F008307AGCAGMVKVIKKSDIEIAAEFEEIFDGATVEEATEKAHNQKMPGESAKFIITDTRFTKAKIKLIGGGENDGSK*
JGI26084J50262_10092146F043149GGAGMALSNSNVRLYAKLDKAHKKIMSAKEKGRQCVHTLNNFKEYNQLFRRIVEAENKDARFLYT*
JGI26084J50262_10092149F065797GGAGGMPKLKKKSWVRKEKIVTVGSCKYCKSEMTSEDSFIPIGKVIKGKYKYQNAHYDCVSNQEHKPKTNFDW*
 ⦗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.