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 B570J40625_100026512

Scaffold B570J40625_100026512


Overview

Basic Information
Taxon OID3300002835 Open in IMG/M
Scaffold IDB570J40625_100026512 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - (Lake Mendota Combined Ray assembly, ASSEMBLY_DATE=20140605)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)9387
Total Scaffold Genes26 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (26.92%)
Novel Protein Genes9 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (22.22%)
Associated Families9

Taxonomy
All Organisms → cellular organisms → Archaea(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)43.099444Long. (o)-89.404444Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001840Metagenome / Metatranscriptome627Y
F006018Metagenome / Metatranscriptome383Y
F006260Metagenome / Metatranscriptome377Y
F008688Metagenome / Metatranscriptome329N
F009135Metagenome / Metatranscriptome322Y
F010081Metagenome / Metatranscriptome308Y
F019476Metagenome / Metatranscriptome229N
F024047Metagenome / Metatranscriptome207N
F072270Metagenome / Metatranscriptome121N

Sequences

Protein IDFamilyRBSSequence
B570J40625_10002651211F008688N/AMNRFNKIVLGSLAAILLTAMTVEPPKIKVYLIMSYRSSDLTIEKVYLKKENAEKYRDMYKESHNYSVEERELTE*
B570J40625_10002651213F010081N/AMKEQIDSIIKKHCLKMQEVDKTKSIPMTVKDLDHIVYEMYRELYGLRDIRASNYNLNSFTADDKKGHCC*
B570J40625_10002651216F006260N/AMEKELTIKDKVNNRIIIQHDDLKFDGKTITIPSYYVNSILDYIKDYEVDGVPQVDIDDYISFRDFLYDIQEHKNQGN*
B570J40625_10002651218F001840N/AMKDQDSIFLICDCYEHGLLVEKFKDENEVSLSLFERGLKGRTLCWSEKLRWCWQILRYGRPWSDFVILSTENQKQLKEFLSK*
B570J40625_1000265122F006018N/AMKKYSIKTNDIGMCMSVGCDFYQTCTNNSVNIFYKTKHKFEPFLDGTVCLSYSSGKNTKDYADNCYPNVLKKIYECHS*
B570J40625_1000265123F072270AGAAGMNVTLDIKFEYNVPMKLEKIPLNKFLSHLTNISPLEYLIELLPKCTENGPWIAGGCLHRTYRKLPLTNADIDVFFKNKEQFEQFVSAISLTSLFSGYTIESTIYSEWHCTLTIKYMDVDWKIQCVTFKYFDTIESLFKSFDINVCRIAYDGTNIIYEDGVLNDINSNKLKFNEGSIYYPSVTLKRLVKYVKMGYDIEDVDLKMLTHAFYKSKKKAIDVLDQDLLTKKPIQTYEGLK*
B570J40625_1000265126F019476N/AMNKTKSAKIILEIEWEAVDDSDLPALWDWKRIKMPMDLTKVKYIGIQTPNGPENVTNWMGN*
B570J40625_1000265127F024047GGAMTIVKTSEIIEWVKNAVEKKMIKELNIPNAKVYLSCDRPNPDVILETKNAEGDLQIVRFLII*
B570J40625_1000265129F009135N/AMSKPKYYLTVNLPPNFDEGDADAIKTDLMAYINNKNQYGAMYGPKSHKKGITIDKVIYRTNED*
 ⦗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.