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_1001869

Scaffold Ga0114340_1001869


Overview

Basic Information
Taxon OID3300008107 Open in IMG/M
Scaffold IDGa0114340_1001869 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)12773
Total Scaffold Genes37 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)32 (86.49%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Associated Families6

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?
F000808Metagenome / Metatranscriptome882Y
F002935Metagenome519Y
F014849Metagenome / Metatranscriptome259Y
F021288Metagenome / Metatranscriptome219Y
F035304Metagenome / Metatranscriptome172Y
F068817Metagenome124Y

Sequences

Protein IDFamilyRBSSequence
Ga0114340_10018691F068817GGAMDIDDFMKDPWKPFNDMRKTPHEHDYDYRIDPSGTMFFEICKLCLDTKGVI
Ga0114340_100186910F035304GAGGMDMPTFVEYVKLHMLSLEQDLENQDGADSIVPYLEGAIEVSKHYLEIINER*
Ga0114340_100186913F021288GGGGGMLGYTKDDLAKMTYGVQCADLLINADENPAIHNYLVKTDEFLQGLWAEGYFDNVE*
Ga0114340_100186914F002935N/AVHKNAGRKNHDISKDYLRLRKNKNIHGDLHLSAQTTIINISLPTKEKPPMSNRTKGYIGQIVDGKKLSTIANNIYRLQYSNDFSECTVDNLLLVTLEEKNVFGDNKYALVCSEGVGWEQDTYGCLEVPTNIGQMGLWNGRVFISVDTVKECLTDQTEDISDYIRTFGDRLDRNCSLWQSKMSVVKDMIEA*
Ga0114340_100186924F000808AGGAMEYNYSLTVSYDGELVSTTRTADMLEIVNAWNKCVDFGDAKEYATYNLSDLTGKMYTKTFYRNGNVSVK*
Ga0114340_100186927F014849AGGGGGMLTNLDLLAIIIALVGSGIVMGLFWKQNIELTKENYRLRNELRKSKLL*
 ⦗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.