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 3300009974

3300009974: Switchgrass associated microbial communities from Austin, Texas, USA - LS_119 metaG



Overview

Basic Information
IMG/M Taxon OID3300009974 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)
Gs0114297 | Gp0127586 | Ga0105039
Sample NameSwitchgrass associated microbial communities from Austin, Texas, USA - LS_119 metaG
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size26347670
Sequencing Scaffolds9
Novel Protein Genes10
Associated Families10

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria1
All Organisms → Viruses → Varidnaviria → Bamfordvirae → Preplasmiviricota → Tectiliviricetes → Kalamavirales → Tectiviridae → Deltatectivirus1
Not Available6
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Panicodae → Paniceae → Panicinae → Panicum1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameSwitchgrass Associated Microbial Communities From Austin, Texas, Usa, To Study Host-Microbe Interactions
TypeHost-Associated
TaxonomyHost-Associated → Plants → Phyllosphere → Leaf → Endophytes → Switchgrass Associated → Switchgrass Associated Microbial Communities From Austin, Texas, Usa, To Study Host-Microbe Interactions

Alternative Ecosystem Assignments
Environment Ontology (ENVO)Unclassified
Earth Microbiome Project Ontology (EMPO)Host-associated → Plant → Plant surface

Location Information
LocationAustin, Texas
CoordinatesLat. (o)30.387Long. (o)-97.7301Alt. (m)N/ADepth (m)N/A
Location on Map
Zoom:    Powered by OpenStreetMap ©


Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000330Metagenome / Metatranscriptome1285Y
F000698Metagenome / Metatranscriptome930Y
F003605Metagenome / Metatranscriptome477Y
F004317Metagenome / Metatranscriptome443Y
F013855Metagenome / Metatranscriptome267Y
F018309Metagenome / Metatranscriptome235Y
F024195Metagenome / Metatranscriptome207Y
F055387Metagenome / Metatranscriptome138Y
F067312Metagenome / Metatranscriptome125Y
F079533Metagenome / Metatranscriptome115N

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0105039_100002All Organisms → cellular organisms → Bacteria41984Open in IMG/M
Ga0105039_100018All Organisms → Viruses → Varidnaviria → Bamfordvirae → Preplasmiviricota → Tectiliviricetes → Kalamavirales → Tectiviridae → Deltatectivirus13352Open in IMG/M
Ga0105039_109657Not Available753Open in IMG/M
Ga0105039_110952Not Available695Open in IMG/M
Ga0105039_112864Not Available631Open in IMG/M
Ga0105039_114257Not Available591Open in IMG/M
Ga0105039_117362Not Available525Open in IMG/M
Ga0105039_117518Not Available522Open in IMG/M
Ga0105039_118600All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Panicodae → Paniceae → Panicinae → Panicum503Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0105039_100002Ga0105039_10000222F003605MAVGDQAQAAGYPIVPDTGEEGRVRWGALEINRTRDFLALVKALIPTGKSAYRTAGGISSGTADPSGGNDGDIYFKIIE*
Ga0105039_100018Ga0105039_10001815F024195MGDKVFNVVGAIVTVALVTTIVSRPNSARVIKAMGDAFSGSIRAALGR*
Ga0105039_109657Ga0105039_1096571F018309NEPSWCNKCKISCHDVLLEFFAINALDPHHWTIKTCFGAFVPVWVHLEPFQYYTKLKAKRDKLVQLMQQFVPRCFVRIFCNERSRSTPLDPNLMFWCVSFRLGAFGTVSLLHKTCYKTCQTGAINAKVHATMSC*
Ga0105039_110952Ga0105039_1109521F079533VSTQLVLNKYNTNYEALRLADSTALAFKCWQNFIKAIYYKLMNYH*
Ga0105039_112864Ga0105039_1128641F013855FSPFCIEFRAVTKLSQMHPNTMKCNKR*VWCPMGSIGCVRCENIRRDFVVRTFALIAPVRPILHRVYCRNKMLPNAPKHYETHHNMSLGSDAMDWADLLQRILLQLCGLNFCFNCNSSA*FEPSIVNQRNGPKCTQTQRNKTKQDFRFQWGWISCIRCEKFGNDFVA*TFALIAPVQPISHRVSCSNEMVRNAPKHYETQQKLSLGSNG
Ga0105039_114257Ga0105039_1142571F004317VIALNYTGKVFGALSPYLSPYRDERQINLSYMVLLDMWNMFG*
Ga0105039_117020Ga0105039_1170201F067312AELVQKFVPRSRVLSFRIKHTRFSPLGPKLIFWCVSYYLGTFGTVWLPYKTRCKTGRSGAKVRAMKSCQIFLQRTYPSTPLNPKLMFHSVSYYFGAFGTVRLHYKLSAKWAKLLQKFVPRSRVGIFGNERTRSTPLDSKLMFWCVSYYWDAFGTVWLNYKTQCKMGRSGGKVRATK
Ga0105039_117362Ga0105039_1173622F000330LSLGPNGVDQVSSLRQILPQLRGTNFCTKLARFPLSFVRQPNGPEYTQMGRNAPKRQFRDKWGGSGAFVAKNSDATSWLELLH*
Ga0105039_117518Ga0105039_1175181F000698MVCFRTVWVHSGPFGCLTKLDAKRAEQVQKFVPRSRVGIFRNERTRSTPLDPKLTFWCVRTIWEHLGLFGSLTKLGAKRAELVQKFVSRKRVGIFHKERTRSTPLDPKLMFWCVSYYLVAFGTVWSHYKTRCKTGRTS
Ga0105039_118600Ga0105039_1186002F055387MLDIRAIIAQKPKKKLYSSMAAMGFVHKDVRGRINHAHTIKEVMAIQILSILTNLP*

 ⦗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.