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 3300026039

3300026039: Natural and restored wetland microbial communities from the San Francisco Bay, California, USA, that impact long-term carbon sequestration - MayberryNE_TuleB_D1 (SPAdes)



Overview

Basic Information
IMG/M Taxon OID3300026039 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)
Gs0111376 | Gp0116083 | Ga0208288
Sample NameNatural and restored wetland microbial communities from the San Francisco Bay, California, USA, that impact long-term carbon sequestration - MayberryNE_TuleB_D1 (SPAdes)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size77031072
Sequencing Scaffolds7
Novel Protein Genes7
Associated Families7

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes1
Not Available5
All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanotrichales → Methanotrichaceae → Methanothrix → unclassified Methanothrix → Methanothrix sp.1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameNatural And Restored Wetland Microbial Communities From The San Francisco Bay, California, Usa, That Impact Long-Term Carbon Sequestration
TypeEnvironmental
TaxonomyEnvironmental → Terrestrial → Soil → Wetlands → Unclassified → Natural And Restored Wetlands → Natural And Restored Wetland Microbial Communities From The San Francisco Bay, California, Usa, That Impact Long-Term Carbon Sequestration

Alternative Ecosystem Assignments
Environment Ontology (ENVO)terrestrial biomewetland areasoil
Earth Microbiome Project Ontology (EMPO)Free-living → Saline → Water (saline)

Location Information
LocationUSA: Antioch, San Francisco Bay, California
CoordinatesLat. (o)38.052509Long. (o)-121.76873Alt. (m)N/ADepth (m)0
Location on Map
Zoom:    Powered by OpenStreetMap ©


Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F040697Metagenome / Metatranscriptome161Y
F050777Metagenome / Metatranscriptome145N
F057298Metagenome136Y
F069503Metagenome124Y
F069913Metagenome / Metatranscriptome123Y
F090409Metagenome108Y
F104554Metagenome100Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0208288_1000815All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes2405Open in IMG/M
Ga0208288_1009375Not Available911Open in IMG/M
Ga0208288_1016802All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanotrichales → Methanotrichaceae → Methanothrix → unclassified Methanothrix → Methanothrix sp.709Open in IMG/M
Ga0208288_1017565Not Available696Open in IMG/M
Ga0208288_1017662Not Available694Open in IMG/M
Ga0208288_1023313Not Available615Open in IMG/M
Ga0208288_1024482Not Available602Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0208288_1000815Ga0208288_10008152F069913MTIEEYNLLEQEFSTSETDIKTFLLTKGVSLHKYYYWKRKSRDLQEASSQSEGQFLPINVLCGGSIKPGKRGKNLKQPFISQGEIEIELRTPSGAELRIRGMMDSLMVSTIIASSGGRRN
Ga0208288_1009375Ga0208288_10093752F069503MDATRLRFTLRPLFKGAYTQIRLQGPVATVPQPREVRRLMALLWLWHGRPLDVVLCADVTSTGACWLEIWEDVLGRVPGHHLDMRYLQLPKTLVHGARP
Ga0208288_1016802Ga0208288_10168022F040697MRLTENLEECEIIDDILREAAEGYGDLTAAALVHKVDVKYLQTRVVELRDLRAAWIS
Ga0208288_1017565Ga0208288_10175651F057298KNTSYKVQVDVDTDAIRNAYQIEEGAYVTTSSGVYTVWNGEWRKLYPQGGSESSLGWARYDDSTYTSSNKLALSDGVEVVLPNDADTIYRSHTGIDYYSDGKVLADFENDTYLMTIVFKYSAPNANQTYLEMHFEGGNGTPYDRIRDTVTFAKGNDVAHDYHGIFQYYADENFVNSGSEWKITSIGGGSFIWDIIFFIQKVQNYG
Ga0208288_1017662Ga0208288_10176621F050777MEDDIIYEKAVEIQNPGRLYFAIKAMRKSPVKISFDMGDLNLTSGAVSSLVSIEGKLPEEVQAMQWFVPLEDLKILQDLIPQDTYYWENRALDLEWQCDLFVDSTIEEKTPLESLEQEDEHRDQLLVANRDYRELQMALDDCSAHIPQVLFSIYPDRLNFAVNCSEHDEIVGTMIQLRSQKDK
Ga0208288_1023313Ga0208288_10233131F090409LAKGRSNGGGRMRKEFAGTLLTSFGMMGTVHFNLEMPGSIIGDTNQFLEEAKGKRVLVTVETQEVAA
Ga0208288_1024482Ga0208288_10244822F104554MSTFPEIESELNRKRVVAEMDALRLEEEAVKGKTLLDKNLALLGNLMVSAGEKLRRRYRSSQEANSVKLVNKVV

 ⦗Top⦘



© 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.