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 Ga0209229_10021237

Scaffold Ga0209229_10021237


Overview

Basic Information
Taxon OID3300027805 Open in IMG/M
Scaffold IDGa0209229_10021237 Open in IMG/M
Source Dataset NameFreshwater and sediment microbial communities from dead zone in Sandusky Bay, Ohio, USA (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2804
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (90.00%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (100.00%)
Associated Families6

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Unclassified → Freshwater And Sediment → Freshwater And Sediment Microbial Communities From A Dead Zone In Lake Erie, Usa

Source Dataset Sampling Location
Location NameSandusky Bay, Ohio, USA
CoordinatesLat. (o)41.474889Long. (o)-82.854137Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000441Metagenome / Metatranscriptome1136Y
F000868Metagenome / Metatranscriptome853Y
F001019Metagenome / Metatranscriptome804Y
F005745Metagenome / Metatranscriptome391Y
F034924Metagenome / Metatranscriptome173Y
F038241Metagenome / Metatranscriptome166Y

Sequences

Protein IDFamilyRBSSequence
Ga0209229_100212372F034924GAGGLPIYRVFGTKYQNYYTIVSAADEYEAATIANSRPSIDWDEIPTDDEIEATDVFLDDDTSEDLQLNM
Ga0209229_100212373F001019AGGMSYYGPSLEILEVAYDVSPGGVRTFEVYDKLDIDPIVNLPIYETESLTDAVEYCYNLDKDFIVRTYAEWEMRELLADI
Ga0209229_100212374F000441GAGGMKMSDAYINDQLSQAQKLLWGGSETENIEAHNIIAKLIKDRIEQVGDRG
Ga0209229_100212376F005745AGGMQEMFTEKLDPHLQRMVDAGVSGLDIMHGHLKILMLEAEAHYEEAQRIEEEDDYSDAMQSMERKYWEGQCDALAHLYKLTYDLSFAIAGMEKPE
Ga0209229_100212378F038241AGGAGGMLGYEMADIDEMTNAIHDAKLFYIRNSDVTYVDKDPMVAGLLKANDFLQGLWAEGYFDGYQD
Ga0209229_100212379F000868GAGGMSDPHGTIGNYRKGGSMSFLENENQMVIDAIYSEIGEMLVEDWVNSNLDEGQMYADFRFAEMSGDNYIKGRFNQFYDLKPEDQYYLEWNEEA
 ⦗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.