Sample 3300002862

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

Sample 3300002862

3300002862: Arctic peat soil from Barrow, Alaska - Barrow Graham LP Incubations RNA 2 (Metagenome Metatranscriptome)

Overview

Basic Information
IMG/M Taxon OID	3300002862 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0084162 \| Gp0055562 \| Ga0004695
Sample Name	Arctic peat soil from Barrow, Alaska - Barrow Graham LP Incubations RNA 2 (Metagenome Metatranscriptome)
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Dataset Contents
Total Genome Size	3552542
Sequencing Scaffolds	10
Novel Protein Genes	12
Associated Families	10

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	7
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Verrucomicrobiae → Verrucomicrobiales → Verrucomicrobia subdivision 3 → unclassified Verrucomicrobia subdivision 3 → Verrucomicrobia subdivision 3 bacterium	2

Ecosystem and Geography

Ecosystem Assignment (GOLD)
Name	Arctic Peat Soil Microbial Communities From The Barrow Environmental Observatory Site, Barrow, Alaska, Usa
Type	Environmental
Taxonomy	Environmental → Terrestrial → Soil → Unclassified → Permafrost → Arctic Peat Soil → Arctic Peat Soil Microbial Communities From The Barrow Environmental Observatory Site, Barrow, Alaska, Usa

Alternative Ecosystem Assignments
Environment Ontology (ENVO)	polar biome → polar → peat soil
Earth Microbiome Project Ontology (EMPO)	Free-living → Non-saline → Soil (non-saline)

Location Information
Location	USA: Alaska
Coordinates	Lat. (^o)	71.28381	Long. (^o)	-156.5985	Alt. (m)	N/A	Depth (m)	N/A
Location on Map

Zoom:	Powered by OpenStreetMap^©

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000817	Metagenome / Metatranscriptome	879	Y
F037987	Metagenome / Metatranscriptome	167	Y
F041277	Metagenome / Metatranscriptome	160	Y
F052605	Metagenome / Metatranscriptome	142	Y
F065302	Metagenome / Metatranscriptome	127	Y
F070134	Metagenome / Metatranscriptome	123	Y
F081359	Metagenome / Metatranscriptome	114	Y
F100011	Metagenome / Metatranscriptome	103	Y
F104110	Metagenome / Metatranscriptome	101	N
F105212	Metagenome / Metatranscriptome	100	Y

Associated Scaffolds

Scaffold	Taxonomy	Length	IMG/M Link
Ga0004695J43176_100019	Not Available	647	Open in IMG/M
Ga0004695J43176_100036	Not Available	650	Open in IMG/M
Ga0004695J43176_100220	Not Available	821	Open in IMG/M
Ga0004695J43176_100324	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	810	Open in IMG/M
Ga0004695J43176_100325	Not Available	583	Open in IMG/M
Ga0004695J43176_100582	Not Available	926	Open in IMG/M
Ga0004695J43176_100677	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Verrucomicrobiae → Verrucomicrobiales → Verrucomicrobia subdivision 3 → unclassified Verrucomicrobia subdivision 3 → Verrucomicrobia subdivision 3 bacterium	809	Open in IMG/M
Ga0004695J43176_100719	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Verrucomicrobiae → Verrucomicrobiales → Verrucomicrobia subdivision 3 → unclassified Verrucomicrobia subdivision 3 → Verrucomicrobia subdivision 3 bacterium	817	Open in IMG/M
Ga0004695J43176_101869	Not Available	597	Open in IMG/M
Ga0004695J43176_104076	Not Available	591	Open in IMG/M

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0004695J43176_100019	Ga0004695J43176_1000191	F105212	HKGSPKNGGSGQKFLIELEAKSNGSQDLHHGRVGVQDHKEQSDVIRATKKC*
Ga0004695J43176_100036	Ga0004695J43176_1000361	F105212	HKGSPKNGGSGQKFLTEFEAKSYGSQDLHHRWVGVWANREQSNVA*
Ga0004695J43176_100220	Ga0004695J43176_1002201	F000817	QKQPAAFNRLKPEVSRIIPGDWGKAGPGWLAKPLLKRIERFGSGGRIHQFL*
Ga0004695J43176_100324	Ga0004695J43176_1003241	F100011	MPFIHDCSQTKGQAEPASAYLSPVARDYPNRALRGFFMPTALRL
Ga0004695J43176_100325	Ga0004695J43176_1003252	F081359	VCREASIQGKRNWTLGSRTAERSALLDEMLSTVHAGDELGWESGHLE
Ga0004695J43176_100582	Ga0004695J43176_1005822	F070134	GVSFLRIPQFLIGVAPSGYRSATSSLHRRSTIQPRLPIDPPTCVGDPISSSAFQLNFRLSSSVRLFGQLSNRSPACAFDPSSCPAFQPIFDLRLRLTFRLRLPTDLRPSPHVDLPTCLPTNLQLAPSANLPAQLSRSRPAFAFCQRSGSAFKPNLRLSSAAVSAWRCPLVCMRPSPLINLPALPANPTSDSHRSLYPFGCLPVYLRLAPPINLPTSPADPTSDSSIAVPLRRCLPAYLRPAPPINLPTQPVDPTSDSSTAVFSGGAFRLIF*
Ga0004695J43176_100677	Ga0004695J43176_1006771	F052605	TKWTAESKIEVVRFRIIPGDWGKVELGWLTRLLQTKPQGAAAEAEFTSSSGGVRTPSNANEGLGSKQR*
Ga0004695J43176_100677	Ga0004695J43176_1006774	F037987	GMGVRHALFPVPAFGAPFSGAAGFPTPFSTASGVIGLVAGPSGTFQRADFE*
Ga0004695J43176_100719	Ga0004695J43176_1007192	F041277	VPDGPATRPVTPLAVENGVGKPAAAEKRAPNAGTGKRAWRTPIP
Ga0004695J43176_100914	Ga0004695J43176_1009141	F104110	EDNLSLHAYPSAGKTEGGTMYLGKDVTTEDDMELGKVSDVSISSSGEVYYLVEKGEDPNIRYYFTQEDVLTSNERVVARSVGEFTDDTAKRSHFLCALYGVEVRDATNKRVGVLDNFVASPEGALVVIEDAKGNALVGRYRDLDLTRLSKFAILKQLPAQDSFDEYLKDINRDALLTKGISCDLSSVAKDEGLLSRIRKKLAQSEEDRIITDQALID*
Ga0004695J43176_101869	Ga0004695J43176_1018691	F065302	QGSRYDSATRLHADVRFAVRCPGRTVYRSPSPPFSLRQVIAIHRSNHASLTDFSTQPEPESRYGLSLAHNDAYATIARSMFLACTFVSPLKIPANPFDSWLLRSVRFRGRNGAISTPGTRYPHPFPTLPIYPRSPLPFGSFCKDPPDRSVQPVQFQETRLTGRSIVTSLPAASSFDSAAARCAGDPAGNSLRPA*
Ga0004695J43176_104076	Ga0004695J43176_1040761	F105212	KGSPKNGGSGQKFLNELEAKSHGSQGPHHRWVGVWDNEEQSEEARITKKC*

© 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.