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 3300026763

3300026763: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G08A4-12 (SPAdes)



Overview

Basic Information
IMG/M Taxon OID3300026763 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0095510 | Gp0072092 | Ga0207568
Sample NameSoil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G08A4-12 (SPAdes)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size23804205
Sequencing Scaffolds15
Novel Protein Genes17
Associated Families17

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium1
All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes1
Not Available5
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium1
All Organisms → cellular organisms → Bacteria → unclassified Bacteria → bacterium1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Phyllobacteriaceae → Hoeflea → unclassified Hoeflea → Hoeflea sp. WL00581
All Organisms → cellular organisms → Bacteria → Acidobacteria1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Thermoleophilia → unclassified Thermoleophilia → Thermoleophilia bacterium1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium1
All Organisms → cellular organisms → Bacteria1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameSoil Microbial Communities From Arlington Agricultural Research Station In Wisconsin And Kellogg Biological Station In Michigan, Replicating The Bioenergy Cropping Systems Trials (Bcsts)
TypeEnvironmental
TaxonomyEnvironmental → Terrestrial → Soil → Unclassified → Agricultural Land → Soil → Soil Microbial Communities From Arlington Agricultural Research Station In Wisconsin And Kellogg Biological Station In Michigan, Replicating The Bioenergy Cropping Systems Trials (Bcsts)

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

Location Information
LocationWisconsin, United States
CoordinatesLat. (o)43.3Long. (o)-89.38Alt. (m)N/ADepth (m)0
Location on Map
Zoom:    Powered by OpenStreetMap ©


Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000466Metagenome / Metatranscriptome1105Y
F006715Metagenome366Y
F015727Metagenome / Metatranscriptome252Y
F020518Metagenome / Metatranscriptome223Y
F024579Metagenome / Metatranscriptome205Y
F036579Metagenome169Y
F041502Metagenome / Metatranscriptome160Y
F045182Metagenome / Metatranscriptome153N
F045783Metagenome / Metatranscriptome152Y
F072075Metagenome121Y
F075371Metagenome / Metatranscriptome119Y
F083875Metagenome / Metatranscriptome112N
F085321Metagenome111Y
F093960Metagenome / Metatranscriptome106Y
F094081Metagenome / Metatranscriptome106Y
F101460Metagenome102N
F103530Metagenome101N

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0207568_100524All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium977Open in IMG/M
Ga0207568_101557All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes756Open in IMG/M
Ga0207568_102881Not Available644Open in IMG/M
Ga0207568_102971All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium637Open in IMG/M
Ga0207568_103406All Organisms → cellular organisms → Bacteria → unclassified Bacteria → bacterium615Open in IMG/M
Ga0207568_103904Not Available590Open in IMG/M
Ga0207568_104036All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Phyllobacteriaceae → Hoeflea → unclassified Hoeflea → Hoeflea sp. WL0058585Open in IMG/M
Ga0207568_104353All Organisms → cellular organisms → Bacteria → Acidobacteria572Open in IMG/M
Ga0207568_104503Not Available567Open in IMG/M
Ga0207568_105082All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria547Open in IMG/M
Ga0207568_105464All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Thermoleophilia → unclassified Thermoleophilia → Thermoleophilia bacterium534Open in IMG/M
Ga0207568_105621Not Available530Open in IMG/M
Ga0207568_106387All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium508Open in IMG/M
Ga0207568_106547All Organisms → cellular organisms → Bacteria504Open in IMG/M
Ga0207568_106632Not Available503Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0207568_100524Ga0207568_1005241F101460MEAVLKRALILSLVAIAPTALAAETLPPSGELGCDDLRLDSCEFFDPVSGLRLRLPRDWPMRRLRVSTETGPSAGVRQRYAERWVVIDYVPEEPSNPEASLFHAAVMPRAAWLRLSAGPDPAPGIEVATSPSLAVVAAQGRINPYPPDSRDAQIYEALIPTLEEISLILT
Ga0207568_101557Ga0207568_1015572F085321METFGRIFAALGAGMILFALTYVTLLVGALVNGMVVLMAGPVI
Ga0207568_102881Ga0207568_1028811F093960FSEHEVTSEQGVTADHFQDYFSPGNRWDMVHLGLFVDKENQLMLFDAPSETADEEHLGIQAIEGMIKDCGAELVVIITCDSLKFGQQLARFTNVIAGYQTIAPSGALSWAKVFYQALSFGMPLSQAFDKAQDAADPGLVLLARRDIKFRRSANLQDK
Ga0207568_102971Ga0207568_1029711F000466SCAFVTLHSREDKTMTRVLTYMENWKSWKTAPSQGVVKRDWVPTGRIDFATRLNGTLEESDQPSEFKLLVEERRIVESITGNENLEIQWRLATLNEAKAVVAQYHKYLAENALIRSVSDETVSLPPPKKVQKIQETTAA
Ga0207568_103406Ga0207568_1034062F072075AVAGRAAADLVHRSTTPIRPALIYTALAILALGWSLAWFLFNLSRMPPYIPGATQDPAYAPPEAVAGLALVASALVLPGSAIACVLAFRSRARRRSPIRHRVVGKP
Ga0207568_103904Ga0207568_1039042F045783AFWFRADDDERGLDPDFEAFTTMDVLNVVRRLSGEL
Ga0207568_104036Ga0207568_1040362F045182SREMLHSAKYQDNPVIQKRMDVLKFLDSVWTKGVPLYYWDGKELNQHIGLYHNENLAGWMLAMRNIKGMKSDAVVDEAAAQVRKKMRRAG
Ga0207568_104353Ga0207568_1043532F006715MYRYRFSLLLLFILASLSVNAQEVEDTIKIKTRVVFLDALVKDKKTNLPISNLSTENFQVLDDGKPRNISYFTREGQARKPLALILILDLREDGAGRFLKRTEILKAMEDELAKLPPGDEVAIMAMNIGEDEQSVWLSEFTNDRAKLASALARVKQICEK
Ga0207568_104503Ga0207568_1045031F083875MKGIFRAACLAILIAPAISAAQEYGCDKVNWGEEVLKAFPNASKGCHSVMMKNNQPYAKYVAEVESVDKSTKEVTLHMLDTKDKAFSKVVIAPKEGASVKIDGKDTPVAKLKKGDRVSFYIPHDRWGLYSDPDSTPINIVSR
Ga0207568_105082Ga0207568_1050821F041502MKPRASKEPLRGELRQSLSLIAMTAMTAATFLGLGLLTAHLLG
Ga0207568_105464Ga0207568_1054641F024579ELVRQLVIRMAGPARGSKLPGFVAAVGADAELDAETKATMLELARDETFLLACEDYMRATAYYH
Ga0207568_105621Ga0207568_1056211F075371VGRVIAVLLATAALTAGCGGSRASDDGTLKSLVDRPGPAVGITAGASQFVPGQVRYPFLVIRN
Ga0207568_105621Ga0207568_1056212F015727QHGCTARPRKPYRMSASKPRKEVKMNKARLISLTVTLSMLAFYLEGFARGLGCFFGHSGSWFDGH
Ga0207568_106385Ga0207568_1063851F094081MADDHRKTLKEEFTDRLEKAKGRLQQSFPEIRQSIKTSGAVEAARKIIDPAQSIFKQFADDIQLKDLIAKAEALVANANL
Ga0207568_106387Ga0207568_1063871F036579VAVDVSVPRPAAVSRATAVPARLLLSGIVAASFLLRFVAALWHTTPLYFPDEYIYSGIARSLAESGKPLIRGSSAHFPAMLEPLLAAPFWLSHDPAVAYRLTQAENALA
Ga0207568_106547Ga0207568_1065471F020518MARMEPLGIHEVDEEIRHLCEDAERQTGTSASPRTYAKNPVAFKALAAFRAALAKESTLD
Ga0207568_106632Ga0207568_1066322F103530MPAPEDGKFERIDPPRYVAFRRVRGTSTLAVIASVEGRDRCGYQLGRWFSERTPHGVFRNVPVDADSYGIDESVAANLIDLIRNGQPLPPRIVR
 ⦗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.