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 3300001804

3300001804: Wetland microbial communities from Twitchell Island in the Sacramento Delta, sample from surface sediment Aug2011 Site A1 Bulk Metatranscriptome (Metagenome Metatranscriptome)



Overview

Basic Information
IMG/M Taxon OID3300001804 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0017769 | Gp0056267 | Ga0003258
Sample NameWetland microbial communities from Twitchell Island in the Sacramento Delta, sample from surface sediment Aug2011 Site A1 Bulk Metatranscriptome (Metagenome Metatranscriptome)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size12924761
Sequencing Scaffolds14
Novel Protein Genes14
Associated Families11

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
Not Available13
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameMicrobial Community Impact On Carbon Sequestration In Managed Wetland Carbon Farming
TypeEnvironmental
TaxonomyEnvironmental → Aquatic → Freshwater → Wetlands → Sediment → Wetland → Microbial Community Impact On Carbon Sequestration In Managed Wetland Carbon Farming

Alternative Ecosystem Assignments
Environment Ontology (ENVO)aquatic biome → delta → sediment
Earth Microbiome Project Ontology (EMPO)Free-living → Saline → Sediment (saline)

Location Information
LocationTwitchell Island, Sacramento and San Joaquin Delta, California, USA
CoordinatesLat. (o)38.107Long. (o)-121.6475Alt. (m)N/ADepth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001024Metagenome / Metatranscriptome803Y
F004925Metagenome / Metatranscriptome418Y
F005001Metagenome / Metatranscriptome415Y
F009043Metagenome / Metatranscriptome324Y
F035541Metagenome / Metatranscriptome172Y
F041496Metagenome / Metatranscriptome160Y
F041780Metagenome / Metatranscriptome159Y
F055278Metagenome / Metatranscriptome139Y
F085747Metagenome / Metatranscriptome111N
F100011Metagenome / Metatranscriptome103Y
F105212Metagenome / Metatranscriptome100Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
JGI20219J20330_100021Not Available583Open in IMG/M
JGI20219J20330_100084Not Available641Open in IMG/M
JGI20219J20330_100119Not Available641Open in IMG/M
JGI20219J20330_100377Not Available590Open in IMG/M
JGI20219J20330_100718Not Available765Open in IMG/M
JGI20219J20330_101365Not Available910Open in IMG/M
JGI20219J20330_101532Not Available565Open in IMG/M
JGI20219J20330_101627Not Available562Open in IMG/M
JGI20219J20330_102321Not Available1028Open in IMG/M
JGI20219J20330_102651Not Available542Open in IMG/M
JGI20219J20330_103534All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila808Open in IMG/M
JGI20219J20330_103740Not Available853Open in IMG/M
JGI20219J20330_109189Not Available576Open in IMG/M
JGI20219J20330_113958Not Available700Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
JGI20219J20330_100021JGI20219J20330_1000211F105212HKGSPKNGGRGQKFLTELEAKSNGSQDPRHGWVGVWTNKEQSDVVRAAKRC*
JGI20219J20330_100084JGI20219J20330_1000841F005001FQVT*FPAWLSTGMHGMEHCRQKRRTIRRFAPRWPFSPAPGSMRPGSPLAASCPEPVARSGFSLSHNDCRLSATSIMGSMLPACYFATFQVSSRARSALRLHYLLPGLRRLRAVSLPLARMHFHYPVRPAAPAISTPLRDFYLPRDQSVQPPLLPAGPPGESARFPLAPRCPPW*KLGLRIIVPGPLRFRRLAVPQTSWNPPAGPPGESARFP
JGI20219J20330_100119JGI20219J20330_1001191F004925AGIERKSLVVSRIIPGNWVKVESGWLAWPLLVRIARFGGRGRIHQFLWPCSHAVSNAKKELGGEE*
JGI20219J20330_100377JGI20219J20330_1003771F041780HGSK*PSVAACSPTGMHGQNTAF*MTGPNSLRSPRLPFGRSASTLWAQPASHSNRNRNLETAFLLTCGDCPYPDLHDKLERSQPASSNSLPRPIRTRSVLNSLPDAFGLRRGHGHKTRFPLAARQSRPILRPPLPFGVSSPPDHNAQSDSDREVCFGKTPDIPSLPERIIVNKSTSGSTFQARYILPSFTVP*
JGI20219J20330_100718JGI20219J20330_1007182F001024MRPKTPLAVENGVGKLAAEARLMPAWERECGELPSP
JGI20219J20330_101365JGI20219J20330_1013651F041496MNWLGLHLPTACAFRFSQPLGAFIRPEPAGLVSCRIRSWGHPPELCSSRAAVRRSQRPSPLGVPSAFRVLLRARVRLPVQLFKLKTEHVALLGLFPSRVFALSALIRPSPDLPSCGCPTGRERTVALHFRVSHAESPAHLSRDCRPSWGFWPSGRHARSNNAGILESPPKAPGVRHRPRVSPSSNPFATLPEPDITSLSASPPQRL
JGI20219J20330_101532JGI20219J20330_1015321F085747FQVICLAAKLSAGIHGTELREQNRRTVSGLLPGAPFRAHRINAPRAVCWPDSVRSRRLVTAFYSLGTTACFQATIPRSKLPACYFNALPNRSSEPFDRSLLRPNRFAPGPVGLIAGGPFPGLRPSTFETASNLHSPLGVLAPARSKRSIRFGSEKPTFRLRPIVLRSPQPFYFVKPVTDHRSELATFP
JGI20219J20330_101627JGI20219J20330_1016271F041780PQLQFAPRPACTARTRHLEWLGLNSLSSPRSPFSEGASTLRAQLARQSNRNRNLKTAFLLPCGDFPYPELRDRLERSQPASSISMPRSMQVRSVLNSLPDTFGIRQGHGHKTRFLFAALQSRPILRPPLPFGDSPPPDHCAQSDSDREVCLGRMPDFPSLPERLNE*
JGI20219J20330_102321JGI20219J20330_1023211F055278EGNARSALQSFRGCCSARSRYRRESSSYGIGCSFRVYHPLKYHRYCFGDPALPLVLTSAVRFSFSGLDRRLFRLPVTSSRRASPSFRVLPSNTYPAVTTAESSHGLWLPTALEESEVHCSRASPTRYVPPSGFGYPLDGFLPRIPCRSCFVPAALLGFPLRRFPLPKGFRGVSAKKNPHTVNLRVTPAPKCQTGQAGLGFWAHTFRKCLANAGFLSRRPPAPPLGFAPSGSSCENLDRDFSQPPLTRFADLTITHQIHRRPRVSVGSRLASTGLAPKYTPAETTLLGFPHRPHPGHSNTTPPGLLSSPRTGPYITADSPVLFGR*
JGI20219J20330_102651JGI20219J20330_1026511F041496QLAAPPLRFRPLQRFSSPEQRHELAGYAFPTACAFRFSQPPGAFIRPEPTGLVPCRIRSWGHPSELCSSHAAVRCFQRRSPLGVRTAFRVLLRVRVRFPVQLFKLKTGYVALLGLFPSRVFSLSALVRPSPDLPSCGYRLGRKRPNRIHFRVSHAESPACLSRDRRPSWGSWPLGRHARA
JGI20219J20330_103534JGI20219J20330_1035341F100011MPVAGDCSPAEGEGEPASTYLSPVARDYPSRALRGFFMPGDAST
JGI20219J20330_103740JGI20219J20330_1037401F105212AIKGHPKNGGGGQEFLSELEVKSHESQGSHHRWVGVQDHKEQSNVVRTT*
JGI20219J20330_109189JGI20219J20330_1091891F009043SK*PDSQPNSPPACTAQSFAARIAGCCPFSSPPPSLESNGSMLPGSPASFPGWSRHLEAAFHSPETTARFQTTISRSKLPTCFFDTLPAVCPARSAFDSPTRSGSPRYAQDRYRKPVA*LAPDTPNPSSDLHSPLGPFGPFRIKAFNPIPGREAHLPNAPDCLSLPNAGSILLVPTLDQRSRLASPSAACCS
JGI20219J20330_113958JGI20219J20330_1139582F035541VKRLALISTLAILAALTIIPAAFAAANTTKLNNIPVTDTLAQGTMEWDVYARYNEDFHRGRRIGTRLFLSLYDNFEFGMAWGVSRPAGPVELALKYKVLDEYNGFPVSVAIGAEGITGNYQRTNVDPTYYAVVGLHDVHLGTSWWDWYVGVNHNPTGYDDEDNSIFGGFKYWINKDWQVNADYLGYSDNEENVMSAGVNYDW
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