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 Ga0105099_10043315

Scaffold Ga0105099_10043315


Overview

Basic Information
Taxon OID3300009082 Open in IMG/M
Scaffold IDGa0105099_10043315 Open in IMG/M
Source Dataset NameFreshwater sediment microbial communities from Prairie Pothole Lake near Jamestown, North Dakota, USA - PPLs Lake P8 Core (1) Depth 1-3cm May2015
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2352
Total Scaffold Genes14 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)13 (92.86%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Sediment → Unclassified → Freshwater Sediment → Freshwater Sediment Microbial Communities From Cottonwood Lakes Research Site Near Jamestown, North Dakota, Usa

Source Dataset Sampling Location
Location Namenear Jamestown, North Dakota
CoordinatesLat. (o)47.0991Long. (o)-99.1044Alt. (m)Depth (m)0
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000821Metagenome / Metatranscriptome876Y
F001477Metagenome / Metatranscriptome687Y
F003863Metagenome464Y
F011484Metagenome290Y
F014590Metagenome261Y

Sequences

Protein IDFamilyRBSSequence
Ga0105099_100433151F014590GGAGGVRTGHLSLVTHEHSVTASVRGNALSPYGPVRAGLTTSQTTQSQQLSELLNSLESVVESLNYKSFTAYDTLVTATEGVRVALL
Ga0105099_1004331513F011484AGGAGGVKELEQFLNVEAEWVLERLSTGTESNDRNYYQGRLDQLAQVRRLLNLPQVMRERAS*
Ga0105099_100433152F003863GGAGGMEKESKQVSGSQVVHYRNYRRARDKALVRLAHLYPDTYKQLLDEQRKFDEQEGKNWSVDSDSRLTINVRTRANGTPTVAKGSGGGENEGNNGGEA*
Ga0105099_100433154F001477GAGMMSNVYTIHPQKSDLILFYEVVEPDGGNTWGGASCIEAIQWLHLAPKGSRLLISAWDSDEEDAHLVGQSIDVTDLINEAKRVGL*
Ga0105099_100433156F000821AGGAGGVNREYLKAKVDLCLTQAEVDIQQQEIARAIKNLERANLALTRIFNLDEEEGNE*
 ⦗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.