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 3300025180

3300025180: Marine microbial communities from the Deep Indian Ocean - MP1374 (SPAdes)



Overview

Basic Information
IMG/M Taxon OID3300025180 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0053074 | Gp0054357 | Ga0208835
Sample NameMarine microbial communities from the Deep Indian Ocean - MP1374 (SPAdes)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size81816124
Sequencing Scaffolds10
Novel Protein Genes10
Associated Families9

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Thaumarchaeota incertae sedis → Candidatus Nitrosotenuis1
All Organisms → cellular organisms → Bacteria1
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota1
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → unclassified Thaumarchaeota → Thaumarchaeota archaeon SCGC AC-337_F141
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria1
All Organisms → cellular organisms → Archaea1
Not Available2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium1
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Thaumarchaeota incertae sedis → Marine Group I → Marine Group I thaumarchaeote1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameDeep Ocean Microbial Communities From The Global Malaspina Expedition
TypeEnvironmental
TaxonomyEnvironmental → Aquatic → Marine → Oceanic → Unclassified → Deep Ocean → Deep Ocean Microbial Communities From The Global Malaspina Expedition

Alternative Ecosystem Assignments
Environment Ontology (ENVO)marine biome → marine water body → sea water
Earth Microbiome Project Ontology (EMPO)Free-living → Saline → Water (saline)

Location Information
LocationSouth of Port of Lincoln, Great Australian Bight, South Indian Ocean
CoordinatesLat. (o)-39.23Long. (o)135.19Alt. (m)N/ADepth (m)3995.55
Location on Map
Zoom:    Powered by OpenStreetMap ©


Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F006423Metagenome373Y
F012354Metagenome281Y
F013190Metagenome / Metatranscriptome273Y
F037770Metagenome167Y
F042383Metagenome / Metatranscriptome158Y
F050430Metagenome / Metatranscriptome145N
F052659Metagenome / Metatranscriptome142N
F066858Metagenome / Metatranscriptome126N
F076187Metagenome118Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0208835_107216All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Thaumarchaeota incertae sedis → Candidatus Nitrosotenuis1805Open in IMG/M
Ga0208835_107965All Organisms → cellular organisms → Bacteria1693Open in IMG/M
Ga0208835_108152All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota1672Open in IMG/M
Ga0208835_108631All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → unclassified Thaumarchaeota → Thaumarchaeota archaeon SCGC AC-337_F141611Open in IMG/M
Ga0208835_109984All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria1468Open in IMG/M
Ga0208835_118545All Organisms → cellular organisms → Archaea977Open in IMG/M
Ga0208835_119639Not Available939Open in IMG/M
Ga0208835_119742All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium936Open in IMG/M
Ga0208835_120589Not Available909Open in IMG/M
Ga0208835_133118All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Thaumarchaeota incertae sedis → Marine Group I → Marine Group I thaumarchaeote640Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0208835_107216Ga0208835_1072163F037770TPSPKFKASRPLAFNADTMVDLPEPGMPVRQTISFAKMKLFTDSSL
Ga0208835_107965Ga0208835_1079652F042383MKGIKMETTYNNFPTPDDFYEGPSDEELKKIEEDLERYSN
Ga0208835_108152Ga0208835_1081521F066858LDIIPAKKLAPAEKTSKRCDTSMGFSSIFLLRNMYDAEEIRISANKILKMSGDISEDTNAPSIVPGTAIKPSFQPSESSIRFCLAYMVVDATELLNTANRLLLTANVGENPANVNTGTIIIPPPRPIIDPNIPAINPSGINQSSSSMLYRY
Ga0208835_108631Ga0208835_1086311F013190LENSSMRTPNFMSLSQLYFSNAELGQEMSISATCDGSIPLNEMPSTVASKVASSTKVDIAEIIAFHSLEVFVLAENSNLIK
Ga0208835_109984Ga0208835_1099842F052659TRSAVFIDGRLISSIPELNYQTIDKLQQGGVPDKVSWMKPSLRGRLRLVKLQAQERNLTIEDLNQSIRSKWVIFWAEV
Ga0208835_118545Ga0208835_1185454F076187PDGLVSVAITHFFEFISTEKFFENFKTSRNVKSFPNIPLIPDTDIFNASNLDTLFINSER
Ga0208835_119639Ga0208835_1196391F076187PALTVSVIICPDGLVSLAITHFFEFISTEKFFENFKTSRNVKSFPKIPLIPDTDIFNASNLDTLFINSERKWLVPR
Ga0208835_119742Ga0208835_1197421F050430NIMDNKLKENLIVGTKIVGMLFFLIVLITTLVWPGGVDTLANLFLTKE
Ga0208835_120589Ga0208835_1205894F012354RINPVANIPKPIPIAKKAIDILNNVGLPVFLNPIYEIVPITTPIKSPTKFRIISRKNSNYADSVTVLNKVSEQVF
Ga0208835_133118Ga0208835_1331183F006423EKTEYYLDPSKDNTEKYVANDGDYWYVGRVGMKGGSSFLKFVAAHGKDSYFESGKLKKVTPKEIEKDATKSPSIINTVDFKKLYKK
 ⦗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.