3300022363: Metatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Washington, United States ? S.767 (Metagenome Metatranscriptome)

Overview

Basic Information

• IMG/M Taxon OID: 3300022363
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114516 | Gp0225759 | Ga0210375
• Sample Name: Metatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Washington, United States ? S.767 (Metagenome Metatranscriptome)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 22586322
• Sequencing Scaffolds: 8
• Novel Protein Genes: 9
• Associated Families: 8

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	8

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: Washington
• Coordinates
  • Lat. (^o): 46.27
  • Long. (^o): -123.946
  • Alt. (m): N/A
  • Depth (m): 0

Associated Families

Family	Category	Number of Sequences	3D Structure?
F001346	Metagenome / Metatranscriptome	718	Y
F006508	Metagenome / Metatranscriptome	371	Y
F010686	Metagenome / Metatranscriptome	300	Y
F011154	Metagenome / Metatranscriptome	294	Y
F017072	Metagenome / Metatranscriptome	243	Y
F023018	Metagenome / Metatranscriptome	211	Y
F025295	Metagenome / Metatranscriptome	202	Y
F077370	Metatranscriptome	117	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0210375_101771	Not Available	1115
Ga0210375_104114	Not Available	810
Ga0210375_104316	Not Available	795
Ga0210375_105624	Not Available	712
Ga0210375_105884	Not Available	699
Ga0210375_107354	Not Available	636
Ga0210375_108748	Not Available	589
Ga0210375_112380	Not Available	511

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0210375_101771	Ga0210375_1017711	F023018	MIRSMIMCLLAATTVLAFPADSPAGGCPGGYAEGAEIERGRLIFVCQGGSVVPKGCIAEDLSRLSIGGNYDTKQYRKKCQLGSDGQLSFEMTGCIANGQEHKVDETFEDGTNFFICKSDGAALKIVNQGCVDGGKRVNKKDTVAKADALYSCEETVNGGSKLVQAGCIKDGKQYKAGESFEVGKYWFNCVRTGREKVVVKAAGCIANGKRINDGDRYFENDVVYECTVDGDKTDVRATGCVQNDGGNILERRLGCTWVEGTAPFQYEWTCKHDAAGNKATKEQVRCNYNVGGGVYNIDPSCYRVVDKAAFGCVSTGGKLNLQSFQGDNAEQSASGAGLH
Ga0210375_104114	Ga0210375_1041141	F025295	IMVTGPGEAAELLRRREVLIPKKLKFITRKSNLQKPI
Ga0210375_104316	Ga0210375_1043162	F077370	DRAIDILVNIFAVNSLGTPFYSFSTSAGSPQLSSNLTDLMILQFTEYSELAQIYGLVKLKKIQLGFTRSSNFIGGGTTILQNTPSIFLQASTIPYSTGSVVLQRAIAQSDNSIELDLQTYDPKSYEIFLPPHIVSNNRANNQTFAFGSQTWISTRLNNVQNLPDLFLNLGSLATPTFDPSTTSGNSVLIGQIHGRMQLSFAGPIVG
Ga0210375_105624	Ga0210375_1056241	F010686	QAIKGVWGMSWRQKAMKGVEGCEKPGEAVKQALIPGFLNNGVMNP
Ga0210375_105884	Ga0210375_1058841	F017072	CKARRRQNSPVPLAVFAHRQMRMRDLAVGSDEKPLRTESSSPETFRFRMNRSHPEGEQLLLCISTVRAALAGSNQIEAAQRKTPKGGQKERGHREEHGNSAGSVKNFQAPAMLKTTPLDCEIKCNLREKRRDPWFRANASSKAMADPGLVVKTRTRDPQACLDLVRKPVAQPPAEAS
Ga0210375_107354	Ga0210375_1073541	F001346	VVWAGPVKTFRKVGDVKNDTADLWTKGNLRVKRRDPWHRANALPRAAADPALIGEDADKKTQTCLDLVRKPVAQPP
Ga0210375_108748	Ga0210375_1087481	F017072	MRMRDLAARRDEKPRRVESSSLETFRFRMNRSHPEGEQLLLCISTVCTALAELNNIRTAQRKTPKGGQKERTHREEHGNSAGSVKNFQASAMLKTTPLDCEIKGNSREKRRDPWFRANASPTAMADPGLVVKTRTRDPQACL
Ga0210375_112380	Ga0210375_1123801	F006508	VALANAPSKAVAVQRQVVKTRSNRRRVLTWFASRWRNHQSKRAEKPHSRI
Ga0210375_112574	Ga0210375_1125741	F011154	MRSDEKPLRIESSRPGRFRAWVNRSYPEGIRLLLCISTGGRLWRPPEGGLPNERRRKAGQSERPNREGHAASAGLVKTFQEVGDVKNDTADLWTKGNLRVKR