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 Ga0208091_1001188

Scaffold Ga0208091_1001188


Overview

Basic Information
Taxon OID3300020506 Open in IMG/M
Scaffold IDGa0208091_1001188 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 26OCT2012 deep hole epilimnion (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4213
Total Scaffold Genes20 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)19 (95.00%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (100.00%)
Associated Families6

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Epilimnion → Freshwater → Freshwater Microbial Communities From Lake Mendota And Trout Bog Lake, Wisconsin, Usa

Source Dataset Sampling Location
Location NameLake Mendota, Madison, Wisconsin, USA
CoordinatesLat. (o)43.098333Long. (o)-89.405278Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002598Metagenome / Metatranscriptome544Y
F004840Metagenome / Metatranscriptome421Y
F017133Metagenome / Metatranscriptome242Y
F019325Metagenome / Metatranscriptome230Y
F026557Metagenome / Metatranscriptome197Y
F045756Metagenome152Y

Sequences

Protein IDFamilyRBSSequence
Ga0208091_10011881F019325AGGTGGMTTLNETLFSTIVHEYHNGGVKSSYGLDAYTRKELLRFLISSKACYCINCIDKENTK
Ga0208091_100118813F002598GAGGMATKLYTIESLLVGKNYRSRSRHFEGEIVSAQKREGIWYGENTEAYLIEVNAKGLRNKFATIAVKVGE
Ga0208091_100118816F004840GAGGMEYEYLVTCQYDSEAKPHWEQRYENEFGAWESFFRFTDWGMANEYSTVNIYTPTGKCYTKVFYRDGRVQVRA
Ga0208091_10011882F017133AGGAGMSIWTKFATVSDYPKGLMNLCPCGQVVLAPALYHEGQPYWENPNKCKELFEGENK
Ga0208091_10011885F045756AGGAGMTKYNVLISYVVEAEDEMRAVFALNKTLYPLSENEIAKFDPFMVEEVTQ
Ga0208091_10011889F026557AGGCGGMINSVLTIPCEECNSTGLIFFGNDFDYDVETCECDFGIEQDLNQFNN
 ⦗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.