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 JGI25384J37096_10005362

Scaffold JGI25384J37096_10005362


Overview

Basic Information
Taxon OID3300002561 Open in IMG/M
Scaffold IDJGI25384J37096_10005362 Open in IMG/M
Source Dataset NameGrasslands soil microbial communities from the Angelo Coastal Reserve, California, USA - Sample 09_25_2013_1_40cm
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4709
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (75.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Grasslands → Grasslands Soil → Grasslands Soil Microbial Communities From The Angelo Coastal Reserve, California, Usa

Source Dataset Sampling Location
Location NameAngelo Coastal Reserve, California, USA
CoordinatesLat. (o)39.718176Long. (o)-123.652732Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F014601Metagenome / Metatranscriptome261Y
F025249Metagenome202Y
F028763Metagenome190N

Sequences

Protein IDFamilyRBSSequence
JGI25384J37096_100053623F014601AGGAGGMSGPTSDNRRPSPIPRAVLAGLIAGLVAGLISYYVINSVLGLIIGFIAGAIVGSRTVLLMHKAREQDQ*
JGI25384J37096_100053624F028763AGGAGMSEPVRSKGRIALGVFAIIMGCVSLVGLSSTSYYFGLGIFGGAYGAVMIALGVALIAKKEAVT*
JGI25384J37096_100053625F025249GAGMNPLNLRPNASYAENKDSRNESATRAPPPSVFGIIVVGLLAGFVVGLLAGPNFTLQGFFLGFAGGALITAGLYFYLAERSQHAR*
 ⦗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.