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 JGI25926J51410_1000517

Scaffold JGI25926J51410_1000517


Overview

Basic Information
Taxon OID3300003490 Open in IMG/M
Scaffold IDJGI25926J51410_1000517 Open in IMG/M
Source Dataset NameFreshwater lake microbial communities from Lake Michigan, USA - Fa13.BD.MM110.SN
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6872
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)10 (83.33%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

Taxonomy
Not Available(Source: )

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?
F015204Metagenome / Metatranscriptome256Y
F017819Metagenome / Metatranscriptome238Y
F027494Metagenome194Y
F077027Metagenome / Metatranscriptome117Y
F078264Metagenome116Y

Sequences

Protein IDFamilyRBSSequence
JGI25926J51410_100051711F015204GGAGMTFEDWWLQLSKAEHKLIGKENARFVWQECQKYTMMTIEDACKAQVAYDQGMKDGRERYEVHVAGWTLSPGVLPGNIWISDAGGEGGDFHIHELAEVIGKFXKEKF*
JGI25926J51410_10005173F078264AGGAGMGRPATPRTQVVPANPEPYIRQPMKKRGRPKKNGRPKKDRYDAVRASPSKRAGQRWITVSVPEEAYYMLKEVAAFYKMGMGAYLHCLLIPVFDIAYEESLTLQRIAKTREKAKNEISNRDDVPRRTHF*
JGI25926J51410_10005174F027494GAGMKYQTEMTFPVELTFEVLPAMLVEDTELPAQLDITKVLLTITGPSGKPRQVDITKTLTEEQMMLFEDDIAENYRENSTF*
JGI25926J51410_10005177F017819N/AMRKRSKYRPRPVLQNPLEFVLSGLMPVRDLPGTYLDVQIKNRAALDHLRRGEANKNDIDMLIGAFNITEALALMGKGHDWLDEIKQGQDALLALSQRGVANGMRFIMTAKQWAALQLVMDLHEEQLAHATVHDIEKAHDFVLKALAQGKARAIVEIQKETT*
JGI25926J51410_10005179F077027GAGMNFNLNIHRVKSIRFSATRSSKTNDMFSASRDIVIETEEGDFELTLFSVYVDEDCDEQLLEIRA*

 ⦗Top⦘



© 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.