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 Ga0114340_1012540

Scaffold Ga0114340_1012540


Overview

Basic Information
Taxon OID3300008107 Open in IMG/M
Scaffold IDGa0114340_1012540 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Harmful Algal Blooms in Lake Erie, Western Basin, USA - Station WLE2, Sample E2014-0046-3-NA
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterUniversity of Michigan
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4736
Total Scaffold Genes16 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)12 (75.00%)
Novel Protein Genes8 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (75.00%)
Associated Families8

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lake → Unclassified → Freshwater, Plankton → Harmful Algal Blooms In Lake Erie

Source Dataset Sampling Location
Location NameLake Erie, USA
CoordinatesLat. (o)41.7635Long. (o)-83.3309Alt. (m)Depth (m)4.9
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000447Metagenome / Metatranscriptome1128Y
F001562Metagenome / Metatranscriptome670Y
F002245Metagenome / Metatranscriptome578Y
F002598Metagenome / Metatranscriptome544Y
F004051Metagenome / Metatranscriptome455Y
F005741Metagenome / Metatranscriptome391Y
F006744Metagenome / Metatranscriptome365Y
F038205Metagenome / Metatranscriptome166Y

Sequences

Protein IDFamilyRBSSequence
Ga0114340_10125401F001562N/AEKTQFEKDLEIKESFIDLLNDIYPTVKIGYSTFTPAEILECCDPVAFAIGLVEHEDYLAELENE*
Ga0114340_101254011F004051AGGAMTLDNKVYQVGDLFTTLKSKETGVIKEIIPNASGSVRVRLETQNGERWTTVLADSLA*
Ga0114340_101254014F005741AGGAMKNRFRIEIYDANKMNDVTIYSEQGVDKEYLTELVFSNLRKFSGRVNAYVFDSVKKKKTTAMFLDESIVNKMNTHKPLTAQEIGIL*
Ga0114340_10125402F002598AGAAGGMATKLYTIESLLVGKNYRSNSRHFSGEIVSAEPRPEIYYGDNAEAYLIEIRTGGLRNKFATIAVKVGE*
Ga0114340_10125403F000447AGGMGYIEIFRMDDEGAGWVDLSEATPDELFNIELGLLEEGAFE*
Ga0114340_10125404F006744AGGGGGMNLEEFKKHVIEQREASKAEALSVLSATITKTNERENLNG*
Ga0114340_10125405F038205GGAMAKVKQYLEIIAASCDECGGAGFLFWGDENNYDVEACECALEDWNI*
Ga0114340_10125409F002245N/AMKVPHTVVFEAIIDLDKIDAKLLPALINLPQSEIEKMCKGATIHALAMSNTLTVANEGNSWAELTIKEGN*
 ⦗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.