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 JGI25930J51415_1012163

Scaffold JGI25930J51415_1012163


Overview

Basic Information
Taxon OID3300003499 Open in IMG/M
Scaffold IDJGI25930J51415_1012163 Open in IMG/M
Source Dataset NameFreshwater lake microbial communities from Lake Michigan, USA - Fa13.BD.MLB.DN
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1709
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (100.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Unclassified → Freshwater Lake → Freshwater Lake Microbial Communities From The Great Lakes, Usa, Analyzing Microbial Food Webs And Carbon Cycling

Source Dataset Sampling Location
Location NameLake Michigan, USA
CoordinatesLat. (o)43.1998Long. (o)-86.5698Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003690Metagenome / Metatranscriptome473Y
F014129Metagenome / Metatranscriptome265Y
F029439Metagenome / Metatranscriptome188Y
F093873Metagenome / Metatranscriptome106N

Sequences

Protein IDFamilyRBSSequence
JGI25930J51415_10121631F093873AGGAMFSLNYTVGGSSTTLLVTSEEYANEFLDLVSQTRVIDTVTLTELPNYKPSKRVVYATTRSWE*
JGI25930J51415_10121632F029439GGAGMTNIVLEPSHPMASSNTGDNRLFRNSVGNYMSRKAYLELLASKEGCVSHRYLSPNESQWLLGVR*
JGI25930J51415_10121635F003690GGAGMTINGFELVISNEYGLEFDSFLGAIYLPWHTIILTTLAVIAYKVYKRFYK*
JGI25930J51415_10121636F014129AGGTGGMTTLSIREITLENVSADEANLIVCVFCSDYSSEFYCVKCNEYKGLMTLGEWLAYTQESWVM*
 ⦗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.