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 Ga0208050_1003231

Scaffold Ga0208050_1003231


Overview

Basic Information
Taxon OID3300020498 Open in IMG/M
Scaffold IDGa0208050_1003231 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 13JUN2010 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)2100
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

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)43.099444Long. (o)-89.404444Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000450Metagenome / Metatranscriptome1126Y
F000714Metagenome / Metatranscriptome924Y
F002207Metagenome / Metatranscriptome583Y
F007470Metagenome / Metatranscriptome350Y

Sequences

Protein IDFamilyRBSSequence
Ga0208050_10032311F002207AGGAMPNWCYNTLTIQGPKSEVDYIKDRLNAPFTLAQETFGMGDISTMGFPTKIEQVSYSNPVFAFFNIHSYKDDGITDEEYACQPNRGDIDIQNDPDWFRKSVEFAKTQKDWYSWNNSNWGTK
Ga0208050_10032312F000450GGCGGMGDRANFGFVQPNGNTIVLYGHWAGNQMLARLAEAVFKARPRWNDPSYATRITISQMVADDWNSETGWGLHVNEIGDNEHKIAIVDFNQQTFSLHEEAPRNDLDNKVNGMSNEALFTMDLSNFVEKYADVTISV
Ga0208050_10032314F007470GGAGMDYQDGFEDGVKFAREVIVTNIRLWAETSEDGAAYDDIADRLEFGTVDYDL
Ga0208050_10032316F000714N/AYNPNLLVTYKVIRGYSDAEYATDKVTSIEWDLHNARQAQKTNGVLQGKIDAVKEIICEAYADSQDQDTLRDIAEALGIELIKEVQFTASVEVSGTYSYDILSDYSDYDLDSVITDALFADSNDGNVQVDDTEVCNVREA
 ⦗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.