Scaffold JGIcombinedJ43975_10017769

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 JGIcombinedJ43975_10017769

Scaffold JGIcombinedJ43975_10017769

Overview

Basic Information
Taxon OID	3300002899 Open in IMG/M
Scaffold ID	JGIcombinedJ43975_10017769 Open in IMG/M
Source Dataset Name	Soil microbial communities from Manhattan, Kansas, USA - Combined assembly of Kansas soil 100-500um Nextera (ASSEMBLY_DATE=20140607)
Source Dataset Category	Metagenome
Source Dataset Use Policy	Open
Sequencing Center	DOE Joint Genome Institute (JGI)
Sequencing Status	Permanent Draft

Scaffold Components
Scaffold Length (bps)	1139
Total Scaffold Genes	2 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)	1 (50.00%)
Novel Protein Genes	2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)	1 (50.00%)
Associated Families	2

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → Blastocatellia → unclassified Blastocatellia → Blastocatellia bacterium	(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Soil → Soil Microbial Communities From Kansas (Konza Prairie Natural Area And Manhattan, Kansas, Usa)

Source Dataset Sampling Location
Location Name	Manhattan, Kansas, USA
Coordinates	Lat. (^o)	39.214	Long. (^o)	-96.5852	Alt. (m)		Depth (m)	0
Location on Map

Zoom:	Powered by OpenStreetMap^©

Associated Families

Family	Category	Number of Sequences	3D Structure?
F020438	Metagenome	224	Y
F080472	Metagenome	115	Y

Sequences

Protein ID	Family	RBS	Sequence
JGIcombinedJ43975_100177691	F020438	GGAG	MKSQKQSRSGERGAALITAVLLSMLLLAAGGILILTSTMTGITARDSTAEMQAYYAAEAGVAKTLEVLRGNVDSSPSGTRASFRNVVCSPALWPTTATWPNESYINVTSDSSTKFQVTSILDPDKQNSASWCTDPAFANYKPERLRIRVTGLGPRDSRKNMEVVVNRYTLEYDVKAVVTLPNGSGNPIDFNLGGSNVTSTSGVDASGGGGTISAVAISDADKQRVNNVIDGCDPDGSNCSGSGPNVTPGDPAILGNDNTPSFLKDVASAREFLYGSEGMKQAAINQGRYFNSGAAAIA
JGIcombinedJ43975_100177692	F080472	N/A	GMNIHYFDQKVTYTAPPGGSDITGVSATEVNPAGAKYIVIAISVTLDAIGTPGQPGYQPPYSVLLCSDVTLRNSDLWSY*

© 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.