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 3300004627

3300004627: Marine microbial communities from expanding oxygen minimum zones in the Saanich Inlet - SI054_200m_RNA (Metagenome Metatranscriptome)



Overview

Basic Information
IMG/M Taxon OID3300004627 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0046785 | Gp0111062 | Ga0066629
Sample NameMarine microbial communities from expanding oxygen minimum zones in the Saanich Inlet - SI054_200m_RNA (Metagenome Metatranscriptome)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?Y
Use PolicyOpen

Dataset Contents
Total Genome Size68210478
Sequencing Scaffolds16
Novel Protein Genes17
Associated Families10

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
Not Available14
All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Candidatus Brocadiia → Candidatus Brocadiales → Candidatus Scalinduaceae → Candidatus Scalindua1
All Organisms → Viruses → Predicted Viral1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameMarine Microbial Communities From Expanding Oxygen Minimum Zones In The Northeastern Subarctic Pacific Ocean
TypeEnvironmental
TaxonomyEnvironmental → Aquatic → Marine → Oceanic → Unclassified → Marine → Marine Microbial Communities From Expanding Oxygen Minimum Zones In The Northeastern Subarctic Pacific Ocean

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

Location Information
LocationBritish Columbia, Canada
CoordinatesLat. (o)48.6Long. (o)-123.5Alt. (m)N/ADepth (m)200
Location on Map
Zoom:    Powered by OpenStreetMap ©


Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004906Metagenome / Metatranscriptome419Y
F016881Metagenome / Metatranscriptome244Y
F018015Metagenome / Metatranscriptome237Y
F029271Metagenome / Metatranscriptome189N
F034189Metagenome / Metatranscriptome175Y
F046847Metagenome / Metatranscriptome150N
F075397Metagenome / Metatranscriptome119N
F078263Metagenome / Metatranscriptome116N
F083344Metagenome / Metatranscriptome113N
F098669Metagenome / Metatranscriptome103N

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0066629_1000399Not Available627Open in IMG/M
Ga0066629_1004994Not Available1163Open in IMG/M
Ga0066629_1013001Not Available512Open in IMG/M
Ga0066629_1013432Not Available1033Open in IMG/M
Ga0066629_1013886Not Available586Open in IMG/M
Ga0066629_1014278Not Available514Open in IMG/M
Ga0066629_1014379Not Available1085Open in IMG/M
Ga0066629_1023203Not Available609Open in IMG/M
Ga0066629_1130655Not Available712Open in IMG/M
Ga0066629_1142381Not Available668Open in IMG/M
Ga0066629_1155929Not Available1330Open in IMG/M
Ga0066629_1165900All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Candidatus Brocadiia → Candidatus Brocadiales → Candidatus Scalinduaceae → Candidatus Scalindua586Open in IMG/M
Ga0066629_1166791Not Available628Open in IMG/M
Ga0066629_1172001Not Available502Open in IMG/M
Ga0066629_1177458All Organisms → Viruses → Predicted Viral1473Open in IMG/M
Ga0066629_1177583Not Available666Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0066629_1000399Ga0066629_10003991F029271MSKLSDLQEIKKLLDVDFRKDKFLDNQYNNSPSFNYDAAKSYVADIHQFLSGKYGEAVIYNFTQEVESLRITTLKMYVESNIVSYQRFGAQK*
Ga0066629_1000399Ga0066629_10003992F075397MKYWHKRVEVVSFFDLDQENQDIELKDDDNAEELAFLIAKDGEYWNLDSFMRTESGRYDGVMGLTNTSAIGVVLSCSGESAVIQCFG*
Ga0066629_1004994Ga0066629_10049943F075397MRHWHKRVEVVSFFDLSEEDQAAEWRDDDNAEELAFLIAENGEYWNLDSFTRAESGRYDGVMSVTDTSAIGVVLSCSGESAVVQCFT*
Ga0066629_1013001Ga0066629_10130011F098669METATRGRKQKWRLKEAEGLGRKWRIEETERRELHESDQGLDPGHGLNPGRKVRRIDQAMEGSPEIVPAKIRKKP
Ga0066629_1013432Ga0066629_10134322F083344MITTIKFTSDDLTMLRGVMSCTAKKSVRRPALNGFHINKDHVVGTDGSRIAKFNTPHLDGELPENGVIIPSIKIPFSIHTVIITIEDDTVTADKYSKQGKTTEVYQTIDANYPLYRKVLADRGKTALDKIAFNPMKISEVAKATKTTITQIEFTSGGELSLIYVNIPE
Ga0066629_1013886Ga0066629_10138861F075397MRHWHKRVAVGSFFDLSEADQAAEWRDDDNAEELAFLIAKDGEYWNLDLFMRTEGRYDGVMGLTNTSAIGVVLSHDCESAVIQYFT*
Ga0066629_1014278Ga0066629_10142781F075397MKYWHKRVEVVSFFDLDQESQAAELKDDDNAEELAFLIAENGDEYWNLDLFMRTESGRYDGVMGLTNTSAIGIVLSCSGESAVIQCFG*
Ga0066629_1014379Ga0066629_10143794F029271MSKLSDLQDIKELLDVDFRKDKFLYNQYNNSPCFNYDAAESYVANIHQFLSEKYGEAVIYNFMQEVESLRITTLKMYIESNIASYQKFGAQK*
Ga0066629_1023203Ga0066629_10232031F083344LIMLRGVMACAAKNSVRYALNGFHINSEHVVGTDGSRIAKFNTPHFDGELPEKGVIIPTIKIPFSVHTVIITIEDDTITVDKHLKHNKTTEVYQTIDANYPLYRKVLADRGKTALDKIAFNPMLISEVAKATKTTITQLEFTAGGELSLIYVNIPDLPEFIFSIMPARF*
Ga0066629_1130655Ga0066629_11306551F004906MATKTEKKTDARDTLDSNEGNELSAIAVKSLTNLEEKVEAIDWKLWEIYNMMKNYVESNPDGPSVPQISQPQVSTTDIASEIAKALGNSQPEEKQSIVGKLFGK*
Ga0066629_1142381Ga0066629_11423812F016881MAVIADKAWWKSKTIWTSVIAGAVGVLQAAGVVEAVPEVVWTVLASFGLYSVRDAVGKSNPEVK*
Ga0066629_1155929Ga0066629_11559292F034189MTTNLAKWASNDGQITKSGLPNDRRAKFLPSVVGFAYDLLRYEYYLGNIG*
Ga0066629_1165900Ga0066629_11659001F078263MEVFVMELLHDSDGLEGSLDCQLKRLEEKIETSQPVALMKDLHRIDDEIKHFKDVEITTNTVVSSVKEHDETIKKLEERTRDKFAEMTSQNKATEAMVADKHNDLISKINGISSRVDNLEEKIELAVRELKSEARKTSFLRKLLWLD*
Ga0066629_1166791Ga0066629_11667911F046847MPDVDKTVEVETPKTENEVVLSQSKLDKLIDKGFSKGANRAKTELAEQLGVDSIEQARELINAKRENDEANKSDLDKAAELIQTLNSTIEGLESNNKNMVADMAVQKVVTENGIKDADYFKHLLAQ
Ga0066629_1172001Ga0066629_11720011F083344MNKTIIEFTGDELAMLRGVMACTAKNSVRYALNGFHINSEHVVGTDGRRIAKFNTPHFNGELPENGVIIPSIKIPFSVITVVITIEDDKITVDKHLKHNKTTEVYQTIDAKYPLYRKVLADRGKTALDKIAFNPMLISEVAKATKTTITQLEFTSGGELSLI
Ga0066629_1177458Ga0066629_11774582F018015MKDRQIYEMNKKWREFRLDEKLNEENESLWTWVYKGVLGGFKKAEKKGGGSVSLDEVARGVAFLIKTEFGGGAKKRFCKIT*
Ga0066629_1177583Ga0066629_11775832F075397MRHWHKRVAVGSFFDLSEESQDIEWKDDDNAEELAFLIAENGEYWNLDLFMRTDSGRYDGVMGLTNTSAIGVVLSHDCESAVIQYFT*
 ⦗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.