Sample 3300022368

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

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Sample 3300022368

3300022368: Metatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Oregon, United States ? S.454 (Metagenome Metatranscriptome)

Overview

Basic Information
IMG/M Taxon OID	3300022368 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0114516 \| Gp0225730 \| Ga0210346
Sample Name	Metatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Oregon, United States ? S.454 (Metagenome Metatranscriptome)
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Dataset Contents
Total Genome Size	36488240
Sequencing Scaffolds	20
Novel Protein Genes	21
Associated Families	17

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Leviviricetes → Norzivirales	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria	1
Not Available	17
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → unclassified Chloroflexi → Chloroflexi bacterium	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
Name	Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series
Type	Environmental
Taxonomy	Environmental → Aquatic → Marine → Intertidal Zone → Estuary → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Alternative Ecosystem Assignments
Environment Ontology (ENVO)	estuarine biome → estuary → sediment
Earth Microbiome Project Ontology (EMPO)	Free-living → Saline → Water (saline)

Location Information
Location	USA: Oregon
Coordinates	Lat. (^o)	46.178	Long. (^o)	-123.853	Alt. (m)	N/A	Depth (m)	0
Location on Map

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Associated Families

Family	Category	Number of Sequences	3D Structure?
F000237	Metagenome / Metatranscriptome	1498	Y
F000734	Metagenome / Metatranscriptome	915	Y
F001506	Metagenome / Metatranscriptome	681	Y
F002557	Metagenome / Metatranscriptome	548	Y
F004323	Metagenome / Metatranscriptome	443	Y
F006508	Metagenome / Metatranscriptome	371	Y
F009934	Metagenome / Metatranscriptome	311	Y
F014854	Metagenome / Metatranscriptome	259	Y
F017072	Metagenome / Metatranscriptome	243	Y
F020183	Metagenome / Metatranscriptome	225	Y

Showing 1 to 10 of 17 entries

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Associated Scaffolds

Scaffold	Taxonomy	Length	IMG/M Link
Ga0210346_100249	All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Leviviricetes → Norzivirales	3108	Open in IMG/M
Ga0210346_100685	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria	2293	Open in IMG/M
Ga0210346_108383	Not Available	845	Open in IMG/M
Ga0210346_109275	Not Available	801	Open in IMG/M
Ga0210346_109387	Not Available	796	Open in IMG/M
Ga0210346_110872	Not Available	734	Open in IMG/M
Ga0210346_111133	Not Available	726	Open in IMG/M
Ga0210346_112110	Not Available	694	Open in IMG/M
Ga0210346_113261	Not Available	662	Open in IMG/M
Ga0210346_113589	Not Available	654	Open in IMG/M

Showing 1 to 10 of 20 entries

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Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0210346_100249	Ga0210346_1002492	F020183	MSLTINAKTFTADKFGVDAVGYIGPAHTLSILDDVQLSRVAPKPTVVFSGVGRTSTKLTRTLTLTGSLTTSGNAIVQINVSVPVGAASADIDALLNDMGSFLSSASYKSHVKGLQISY
Ga0210346_100685	Ga0210346_1006852	F001506	MTKNRKLPTKKKGEILPYPESSKIQSKTFQMKYQKNLSLTAKFILNNFQNKYIYYAIDDILYLLKSKPIERDNLLAILYSPILSLQNNFSVDFFEIWIREVFIDEISKTNKFLKNDSKTLKQSNYITIKFFYKIPVKKKESLWEF
Ga0210346_108383	Ga0210346_1083831	F025295	MVTGLGEAAELLRRREVLIPEKLKFITRKSNLQKLI
Ga0210346_109275	Ga0210346_1092752	F009934	MRPETPLAVENGVGKLAAYRAPNASMGKRAWRTPT
Ga0210346_109387	Ga0210346_1093872	F041277	MRPETPVAVENGVGKPAAHEAPNVGTGKRAWRTPI
Ga0210346_110872	Ga0210346_1108721	F017072	MRMRDLAVGSDEKPLRTESSSPETFRFRMNRSHPEGEQLLLCISTVRAALAESNQIEAAQRKTPKGGQKERGHREEHGNSAGSVKNFQAPAMLKTTPLDCEIKCNLREKRRDPWFRANASSKAMADPGLVVKTRTRDPQACLDLVRKPVAQPPAKAS
Ga0210346_111133	Ga0210346_1111331	F002557	VLMHSSNHYPLGNCDSPGSETNPDYLTQFGAVSHRPSLPSSFFAFTDGARTPPEELVNSASSIACVSTRLRR
Ga0210346_112110	Ga0210346_1121101	F006508	VALANAPSKAVAVQRQVVKTRSNRRRVLTWFASRWRNHQSKRAEKPHSKSSCGDALDGP
Ga0210346_113261	Ga0210346_1132611	F025295	IMVTSPGEAAELLRRREVLIPMKLKFLTRKSDLQKPI
Ga0210346_113589	Ga0210346_1135891	F060937	RGAGNGREIEECTAGIIPGNWGTVGPGWLVQPLRRRIAGFAEVRQNSPAPLAGVAARHNAIEELGGQGR
Ga0210346_113873	Ga0210346_1138731	F000237	PXYYLYLIQLHVMFCHESXDSDSGEATYEDKSGSYISXFYDAFLKEIQDAXYXTIFVFIYFXLHHFNPSTVNYFFFERXNISELDEIRFYGVAPHXYFRPLMGVLVISPTHYEGLMXMGLFFILLTFLPIFYNFYNVNNKHIPTIPMQNSLLQTFAFIIFMMSMFCSASMLPCGRYYYEPEGGYVGNPXVKFSLQYIYLYMAXFIHHLDLIDHYI
Ga0210346_115982	Ga0210346_1159821	F025295	IMVTGPGEAAELLKRREVLIPKKLKHLTRKSNLQKLN
Ga0210346_116229	Ga0210346_1162292	F025295	IKVTGPGEATELLRRREVLIPEKLKFLTRKSNLQKPI
Ga0210346_117889	Ga0210346_1178891	F077370	GKTNDRAIDILVNIFAVNSLGTPFYSFSTSAGSPQLSSNLTDLMILQFTEYSELAQIYGLVKLKKIQLGFTRSSNFIGGGTTILQNTPSIFLQASTIPYSTGSVVLQRAIAQSDNSIELDLQTYDPKSYEIFLPPHIVSNNRANNQTFAFGSQTWISTRLNNVQNLPDLFLNLGSLATPTFDPSTTS
Ga0210346_119036	Ga0210346_1190361	F082737	MPGLSLSQPSRRTPFRLAPRLRSFSVGASLLSGTPASLPVRSQNLEADFHSPTTTSLLPDRRGGVRIPALLLQLCGTFSDCPVRSDLHPRPVSRTAWGLPRPEPVAAKSCATPACRAKPLLPFRAFPLPDQSTRPRWPTGNLLPVTPDLPSLPTGGRIRNQHQRIIVP
Ga0210346_119071	Ga0210346_1190711	F088925	MGRAGLGDWKEIPMQERKCSKCGSTNVYKNMSNNWHQDGIVLQMIAVDSFHDLFQTEAFLCLDCRHLDIQVLETSTMHGKQKTLIDTVQASNNWRKAXMG
Ga0210346_119723	Ga0210346_1197231	F082737	RFEPVTSGTPDAFRLASRLRSFSVGASLLSGTPASLPVRSRSLEADFHSPTKASLLPDDRGGVRAPALLLPLHDTSPVSPVRSGLHPRPVSRTAWDFNNQNPLLSGPAPLLPASLNRRSPSGLFAPPDQCTRSRWPTENLLSGTPDLPSLPTGGRIRYQHQRIIVPAPLRPFQLAVP
Ga0210346_120289	Ga0210346_1202891	F000734	VVWAGPVKTFRKVGDVKNDTADLWTKGNLRVKRRDPWHRANALPRAAADPALIGEDADKKTQ
Ga0210346_120707	Ga0210346_1207071	F004323	MPLDDLRRLEGMATPAVAIHSPVTRDYPSRALSDVFQAAALR
Ga0210346_122243	Ga0210346_1222431	F014854	ELRWTAVIERKSLVVSRIIPGNWGKVESGWLARPLLDRIARSGGGGRIHQFLWSRSHAVSYAKRNLAARGDKKPLRVGSSSSGRFRAWANRSYPEGKWLLLCIGTGRVTLADSINRLKPPNESHRKVDKRSARTGKITPARQAA
Ga0210346_122434	Ga0210346_1224341	F078934	MTSQSLVLRPQTQPIGQLLRGSPVLSGEGVRLIVRSYFVSSGFTSELVLGMPRADSVPTSKPD

Showing 1 to 21 of 21 entries

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