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 Ga0187842_1012033

Scaffold Ga0187842_1012033


Overview

Basic Information
Taxon OID3300018790 Open in IMG/M
Scaffold IDGa0187842_1012033 Open in IMG/M
Source Dataset NameOligotrophic lake water microbial communities from Sparkling Lake, Wisconsin, USA - SP09_SKY_41
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3012
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (75.00%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lake → Unclassified → Freshwater → Freshwater Microbial Communities From Oligotrophic, Dystrophic, And Eutrophic Lakes In Wisonsin, Usa

Source Dataset Sampling Location
Location NameUSA: Wisconsin
CoordinatesLat. (o)46.008Long. (o)-89.701Alt. (m)Depth (m)0
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F026209Metagenome / Metatranscriptome198Y
F036073Metagenome / Metatranscriptome170Y
F076813Metagenome / Metatranscriptome117Y
F088194Metagenome / Metatranscriptome109Y
F102437Metagenome / Metatranscriptome101N

Sequences

Protein IDFamilyRBSSequence
Ga0187842_10120332F076813AGGAGMSKFKDHDQRAELRDLFAALAMQSLINQDAATHTWVAHQAYKYADAMLDVRDAVSHNEEI
Ga0187842_10120333F036073AGGAGMNETETMEPTKPYDADLHCKKIAWMVANGPDWDIENQTLEQYLETSADYPTDEQVAGFNHLWVEPFVPFKKEKPYEGEQVNEQV
Ga0187842_10120335F088194N/AMMNEVAATSEETTAYALGHTIATLLNLKRMVNQNMTDYSNNLEGMRGMIPMWSKSELMEQFDRAINKLNTIQYPYKY
Ga0187842_10120338F102437AGGAGMTSKLRAFEDTVLSVREPRELKGSLVCSIQDSDIPIIDKRKLIIAIDRCNTINDLQRLFYNALLKFEGHGVL
Ga0187842_10120339F026209N/AMGMMNKEVTNEIYDDNTGEWRQVTIPAVGGIKWEKRESLGDTKQSAYYDHSFYKVPFYGPYDQGRIHKALSRLYPARFNKFGGYTTVSTVEQLDDQHLKVELCYHIGD

 ⦗Top⦘



© 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.