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 JGI25388J43891_1006172

Scaffold JGI25388J43891_1006172


Overview

Basic Information
Taxon OID3300002909 Open in IMG/M
Scaffold IDJGI25388J43891_1006172 Open in IMG/M
Source Dataset NameGrasslands soil microbial communities from the Angelo Coastal Reserve, California, USA - Sample 09_27_2013_2_20cm
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2373
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (80.00%)
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 → Gemmatimonadetes → unclassified Gemmatimonadetes → Gemmatimonadetes bacterium(Source: UniRef50)

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)39.73825Long. (o)-123.6301Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001681Metagenome / Metatranscriptome652Y
F001901Metagenome / Metatranscriptome620Y
F001906Metagenome / Metatranscriptome619Y

Sequences

Protein IDFamilyRBSSequence
JGI25388J43891_10061722F001681GAGLFLWHPDYAPWIVARRSREANPNDRAFFDPKAGEIVWSSRDGMKDYEMEELAARHLVGELVEMPPCESEQEVEAWFLKRGFKVEWI*
JGI25388J43891_10061723F001901AGGAMTRRKQPWGQQRGWIVPADGSPPQELPQQMVGHKLICWPGTMPEMQPAEPAKNLASKDYYHRYVLNPEGVSVYVPEGRDAESLPEAIKNEIRRQLKGQS*
JGI25388J43891_10061724F001906AGGAMTIKPNVFPSRLSVLLGLQGVVLTDEELSHTTERYPRCRGKEHWGVREYVRRTGVGAREYRVVRGSSIEDVYRSVERVRAAAVGTALNELDSQETPG*
 ⦗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.