NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0208234_1002472

Scaffold Ga0208234_1002472


Overview

Basic Information
Taxon OID3300020515 Open in IMG/M
Scaffold IDGa0208234_1002472 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 27SEP2012 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)2807
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (71.43%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Saprospiria → Saprospirales → unclassified Saprospirales → Saprospirales bacterium(Source: UniRef50)

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)43.098333Long. (o)-89.405278Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000325Metagenome / Metatranscriptome1296Y
F006543Metagenome / Metatranscriptome370Y
F012108Metagenome / Metatranscriptome283Y

Sequences

Protein IDFamilyRBSSequence
Ga0208234_10024722F012108GGAMIKIELSVRESLNMIANGCSLDMFDKIVCALEVALGVNQRRMVTITGGLTLDNRIHSIKAIRLHTGWGLKEAKDWTDYLVGGWHYDKFVPAKSGAKQSITLKTPEAAEALLRDLAGLGCEGYLS
Ga0208234_10024723F006543GGAGMKKFSFVVDVVADELDRDGVVDSIRDCLSDSLPGDVHANVKAGEVKAFSEQGYKVWRARVTGVTAEQAGDAHDGKVEKETTEAVA
Ga0208234_10024726F000325AGGAGMKYAEGNDKLGKNCLVVSRPVGDTCPPDCAFLDNGCYAENTEKIYPGVRPAGMQNLITEKNRIRSMILEAKRRNRSIRFMERGDWLLNGELDISFVENVVWACDSILADGDTLPKMWFYTHVYDERIPAQLGKYFSIFASIHNGEHMKIAKSKGFTKFAWCDSDQKIAPKRPKNKAKADAWRQALPKLVILEGEKFITCPEIRRGRSFVTCTGTKDSQACNMCLDKDKPNVLFPCH

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