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 3300021258

3300021258: Metatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Oregon, United States ? S.445 (Metagenome Metatranscriptome)



Overview

Basic Information
IMG/M Taxon OID3300021258 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)
Gs0114516 | Gp0225729 | Ga0210345
Sample NameMetatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Oregon, United States ? S.445 (Metagenome Metatranscriptome)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size24471950
Sequencing Scaffolds39
Novel Protein Genes45
Associated Families39

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
Not Available26
All Organisms → cellular organisms → Bacteria1
All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Leviviricetes1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila2
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Naviculales → Naviculaceae → Fistulifera → Fistulifera solaris3
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei1
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta2
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Naviculales → Phaeodactylaceae → Phaeodactylum → Phaeodactylum tricornutum1
All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes1
All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Leviviricetes → Norzivirales → Atkinsviridae1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameEstuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series
TypeEnvironmental
TaxonomyEnvironmental → 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 biomeestuarysediment
Earth Microbiome Project Ontology (EMPO)Free-living → Saline → Water (saline)

Location Information
LocationUSA: Oregon
CoordinatesLat. (o)46.178Long. (o)-123.853Alt. (m)N/ADepth (m)0
Location on Map
Zoom:    Powered by OpenStreetMap ©


Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000203Metagenome / Metatranscriptome1619Y
F000344Metagenome / Metatranscriptome1257Y
F000817Metagenome / Metatranscriptome879Y
F001296Metagenome / Metatranscriptome728Y
F001633Metagenome / Metatranscriptome660Y
F001679Metagenome / Metatranscriptome653Y
F002557Metagenome / Metatranscriptome548Y
F004323Metagenome / Metatranscriptome443Y
F004925Metagenome / Metatranscriptome418Y
F005443Metagenome / Metatranscriptome400Y
F006508Metagenome / Metatranscriptome371Y
F010923Metagenome / Metatranscriptome297Y
F011154Metagenome / Metatranscriptome294Y
F014031Metagenome / Metatranscriptome266Y
F014854Metagenome / Metatranscriptome259Y
F014988Metagenome / Metatranscriptome258Y
F022790Metagenome / Metatranscriptome212Y
F024104Metagenome / Metatranscriptome207Y
F024439Metagenome / Metatranscriptome206Y
F024483Metagenome / Metatranscriptome205Y
F024800Metagenome / Metatranscriptome204Y
F025295Metagenome / Metatranscriptome202Y
F027105Metagenome / Metatranscriptome195Y
F033058Metagenome / Metatranscriptome178Y
F034767Metagenome / Metatranscriptome174Y
F038082Metagenome / Metatranscriptome166Y
F038934Metagenome / Metatranscriptome164Y
F042669Metagenome / Metatranscriptome157Y
F045132Metagenome / Metatranscriptome153Y
F047066Metagenome / Metatranscriptome150Y
F049440Metagenome / Metatranscriptome146Y
F060937Metagenome / Metatranscriptome132Y
F062310Metagenome / Metatranscriptome130Y
F062365Metagenome / Metatranscriptome130Y
F075465Metagenome / Metatranscriptome119Y
F080128Metagenome / Metatranscriptome115Y
F082263Metagenome / Metatranscriptome113Y
F094695Metagenome / Metatranscriptome105Y
F096691Metagenome / Metatranscriptome104N

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0210345_100474Not Available714Open in IMG/M
Ga0210345_101822Not Available541Open in IMG/M
Ga0210345_102485All Organisms → cellular organisms → Bacteria604Open in IMG/M
Ga0210345_102825Not Available561Open in IMG/M
Ga0210345_105581Not Available504Open in IMG/M
Ga0210345_108320Not Available722Open in IMG/M
Ga0210345_110064Not Available508Open in IMG/M
Ga0210345_111085Not Available557Open in IMG/M
Ga0210345_112403All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Leviviricetes1025Open in IMG/M
Ga0210345_113787All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila831Open in IMG/M
Ga0210345_115303Not Available722Open in IMG/M
Ga0210345_117837Not Available545Open in IMG/M
Ga0210345_118255Not Available657Open in IMG/M
Ga0210345_118533Not Available551Open in IMG/M
Ga0210345_118558Not Available527Open in IMG/M
Ga0210345_121367All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Naviculales → Naviculaceae → Fistulifera → Fistulifera solaris912Open in IMG/M
Ga0210345_122003Not Available809Open in IMG/M
Ga0210345_125080All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei716Open in IMG/M
Ga0210345_127131Not Available677Open in IMG/M
Ga0210345_131042Not Available1011Open in IMG/M
Ga0210345_132454Not Available517Open in IMG/M
Ga0210345_132944Not Available674Open in IMG/M
Ga0210345_135291Not Available595Open in IMG/M
Ga0210345_135432All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta510Open in IMG/M
Ga0210345_137362All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Naviculales → Phaeodactylaceae → Phaeodactylum → Phaeodactylum tricornutum697Open in IMG/M
Ga0210345_141323Not Available905Open in IMG/M
Ga0210345_143497Not Available756Open in IMG/M
Ga0210345_144187Not Available573Open in IMG/M
Ga0210345_145379All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes599Open in IMG/M
Ga0210345_145849Not Available520Open in IMG/M
Ga0210345_145963Not Available806Open in IMG/M
Ga0210345_146734Not Available1057Open in IMG/M
Ga0210345_147249Not Available810Open in IMG/M
Ga0210345_149570Not Available711Open in IMG/M
Ga0210345_150156All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Naviculales → Naviculaceae → Fistulifera → Fistulifera solaris591Open in IMG/M
Ga0210345_150554All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta516Open in IMG/M
Ga0210345_150732All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Naviculales → Naviculaceae → Fistulifera → Fistulifera solaris629Open in IMG/M
Ga0210345_152338All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila564Open in IMG/M
Ga0210345_154078All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Leviviricetes → Norzivirales → Atkinsviridae2603Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0210345_100474Ga0210345_1004741F014854WNGRRGREIKAIVPRMIPGNWGKVEPGWLARPLLKQIARSGGGRIHQFLWSRSHAVSYAKRNLAARSDEKPLRVGSSSPGRFRAWANRSYPEGKWLLLCISTGRVTLADSINRLKPPNESHRKVDKRSARTGKITPARQAA
Ga0210345_101822Ga0210345_1018221F024800VARGQRTARSGGRPRANGGDAETKSRACLHQVRGPVAQPPAQAGLEASLEIQRARAAGRPCYEAESTPLAVENSVGKPAAENKTGAQCRPGKES
Ga0210345_102485Ga0210345_1024851F014031MRRHRGRVGLMAAAALLGLMVSGASAQLTTERSASILVFPKVIANGTRDTIIQITNTSNSMVHAHCFYVNAALTRPELPPDPVLNPPLWQEIDFDIWLTKQQPTHW
Ga0210345_102825Ga0210345_1028251F094695LDGGITVCSVRDPYFRETWAAVQRFSDESIGPSWVQPIPVQRLPFPAASFGFSLSAVVRELSHPRHSSLRLTCLLEALPPINRPRMRTREHLSCDFVPYSARQKQVSVSPGDSNLRHRPSSGFLTLSTSYSTCNPGQLVSSGLRSWGSTGSVHSPTPFGKGRVRRFRFSSSKLSPFPRRLPRRQSPL
Ga0210345_104585Ga0210345_1045851F038082RMGAHIKRENFLQSNLPKAFAYILNDYCTDGLKTRLAALPDYLTSIQDDPLALLKAIKTCVHENAVTQYPPVTIQQHWSRLLQLKQSSDEDPPTYAKRFEQQLETVKGYVGNTFTDGFAEHMPDYKANAYKHDAGKITALLATHVPDDAARQALATDLQDLFSHYKPKETQAQLDLKAQVRSEFEAYLFLRSASKAKYGSLLQTLQQQYSLGQAHYPDSIHKAVDIL
Ga0210345_105581Ga0210345_1055811F033058LVWFAGRWRNHQSKRAEKPHSKSSSGDALDGPATRPETPLAVENSVGKPAAPEAPNAGTGKREWR
Ga0210345_108320Ga0210345_1083201F025295MVTGPGEATELLRRREVLIPEKLKFITRKSNLQKLI
Ga0210345_110064Ga0210345_1100641F060937NRGAGNGRKIEECTAGIIPGDWGTVGPGWLVQPLGSRIARFGERRQYSPAPLTGVATRHNAIEELGGEER
Ga0210345_111085Ga0210345_1110851F000817ELKRTTAVKELSLEVSRIIPGDWGKAESGWLAWPLGKRSARSGDGGRIHQFL
Ga0210345_112403Ga0210345_1124032F005443MSLSNTLVTNEIKNSAGTEVEFGRIGDGPTPRSTVFAQVGEAPSLTHRLNLAHQESGSGLKKRRRSLVRFDKTVISTVDSVTPVVVSAYMVLDAPVGALATSAEMAHVLAELMSFCATTGAATTVLFDCTGNGAAALLAGSL
Ga0210345_113787Ga0210345_1137871F000344MRPKHPHAAESGVGKHTARESESAKACANGKERVANAHSHKLA
Ga0210345_115303Ga0210345_1153031F014854ELRWTAVDERKSLVVSRMIPGNWGKVESGWLARPLLDRIARSGGGGRIHQFLWSRSHAVSYAKRNLAARGDKKPLRVGSSSSGRFRAWANRSYPEGKWLLLCIGTGRVTLADSINRLKPPSESHRKVDKGSARTGKITQARQAV
Ga0210345_117837Ga0210345_1178371F002557VLMHSSNHYPLGNCDSPKPETSLGYLIRLGAVSHRPSPPSSFFAFTDSARTPPEELVNPA
Ga0210345_118255Ga0210345_1182551F006508VALANAPPKVVADQSQVVKTRRRNCRRVLTWFASRWRNHQPKRAEKPHSKFNVARRWTA
Ga0210345_118533Ga0210345_1185331F027105TIDDLEEDEWTDEESIEDKAYKNVQELKISEVATGSILTANRYEAHLDGGSQASTTNDKAVLWGFKWYTNKNPCRIRLICADGKTPIVPEGYGTVRIPAANTEGYVPIKCYYTPDIPDFILSPNSFKALLGKHYNGYKLECDDDKKSFRFSLNHKMRKSGLVLLRGTTRGGLCYTRPAVPPMP
Ga0210345_118558Ga0210345_1185581F024483IFLGYRTSTLKNVVWYDPLTDRVKYGYHVRFDEGFNDLPLSKLPPNVVLMDRREERIPAETLTITIPPFTTSEHPFFHEDDVTVKVVCASDLYGFELREDDCMKRVYISDFKKDGKGTKGRRSCNTICSTERATRSKYRGSYITAIDDEEIVTLNQAKEKLKELRNKNVDTFTMI
Ga0210345_121367Ga0210345_1213671F062365LADDDPSCNMQKPSLSPVNVENDGDIYKEGRDDIMIMSSINAVDIHRISWSPASDVQVEPVDVQCVDDNPDAIRAQIDTGAHVSCTDQLHMLHGYRKFTRSRPSPVKLMPATVDSDAVPKGIGYLHVPAKNAQGYLAVPTFYTPCLRTAVIDERDLVKAAKVSVNDIRSDRITKHKYAGTFAYHARHRMNSSKDVIVH
Ga0210345_122003Ga0210345_1220031F096691VPSGGDAKSKSQTCLHLVGKLVAQPSVKPAEKPHSKSSVRKALDGPATRPMTPLAVENGVGKPAAPERGAPNVGMGKRAWHTPIP
Ga0210345_125080Ga0210345_1250801F001633LAFAGGVLPDATLRGMRMSRSHGGTVLIVADRDLSSEASAPGSVTSCRKWLAGRGADTPAIFIVSRRHRYHGDGTSFWLAVGPALRV
Ga0210345_126188Ga0210345_1261881F011154MRSDEKPLRIESSRPGRFRAWANRSYPEGIRLLLCISTGGRLWRPPEGGLPNERRRKAGQSERPNREGHAASAGPVKTFQAVGDVKNDTADLWTKGNLRVKRRDPWHRANALSKAAADPALSG
Ga0210345_127131Ga0210345_1271311F045132VLIHSSNHYPLGNCDSPKSETNLGYLTQSGAVSHRPSLPSSLFAITDDARTPSEELVNPASPTKPFDPVLRGCVNQPDPTFPRSPGRILETAASDLTHRPTVS
Ga0210345_131042Ga0210345_1310421F049440MPPSSTSSTVDEDRLPRSHRCRLQRLNGFYDRESVARCA
Ga0210345_132454Ga0210345_1324541F004925ELRWTAVFERKPQVVSRIIPGNWGKAESGWLAWPLLNRIARCGGGGRIHQFLWPRSHAVSNAKKEPGDEE
Ga0210345_132944Ga0210345_1329441F004925TEMDAVIVRKSKVVSRMIPGNWGKVGSGWLARPLLNRIARNGGGGRIHQFLWPRSRAVSNAN
Ga0210345_135291Ga0210345_1352911F080128VALANAPSKAVAVQCQVVKTRKRNCRRVLTWFASRWRNHQPKRAEKPHSKFNLARGWTALLRGRKTPLVTENGVGKPAAA
Ga0210345_135432Ga0210345_1354321F082263LLRSADANNVGLALRWEAGLAGMEALASTPDHDRTVAVEEWASAVTDMVNTQSALDAWCVERSIVSIRVAKEGGWLNMTELRDLYRWMSMDVSGVVPDATNEEKAALSKPAYIGQPVDVSDTHAIVRIALGVESLLSYLDGKEQTLNEDQATVRKLAAISKFF
Ga0210345_137362Ga0210345_1373621F038934RTFLMPPTADGSRHRAKIMEAIRDMKDEAHKDPAYIKFKCLVNNSFEEVVAYNDLVDHIEKDTTWDGVWTFEKILSHKKVRAGDKDHRGSGTNCLVLWSTGEQTWEPLYDRSGKTGLWIDDPVTVAIYARDNGLLDEPGWKLPGLKKMAKTQKKLILMANKAKLHSFRSKPIYMYGFQVPRNHAEALELDRINGNTMWIDAETNELSQIDEYKSFIDKGVGFNPGSDYKKIR
Ga0210345_139621Ga0210345_1396211F022790PNVVLMDRREERIPAETLTITIPPFTTSEHPFFHEDDVTVKVVCDSDLCGCELREDDCMKRVYISDFKKDGKGTKGRRSCNTIFSTERATRRKYRGAYITAIDDEEIVTLNQAKEKLKELRNKNVDTFTMILAREPRPSKSMTRRAYDELELPEFDLDENLGEDYFASDGNLEGDSSMTASGETNTFGTDYAPPIGTKISKDFGSKGFF
Ga0210345_140158Ga0210345_1401581F000203ALFPAPTLGAPLAGAAGFPTLFSTASGVCGLVAGPSSALRRLNFE
Ga0210345_141323Ga0210345_1413232F094695SCSPLQRCQLLDGGITVCSVRDPYFRETWAGVQRFSGKSIGPSWVRPFPVQRLPFPAASFGSSLFTVVRELSHPRHSSLRLTCLLEALPPINRSRMRTRKHLSCDFVPYSARQKQASVSPGDSNLRHCPSSGFLTLSTSYSACNPGQLVSSGLRSWGSTGSIYSPPPFGGGRVRRFRFSSSKLSPFPRRLPRRQSPLIHVIRCSGEGALR
Ga0210345_143497Ga0210345_1434971F047066VALANAPSKAVAVQRQVVKTRSNRRRVLTWFASRWRNHQSKRAEKPHSIIQGWKTLDGPATRPITPLAVENGVGKPAAAR
Ga0210345_144187Ga0210345_1441871F024104VPVRPFGSTTASRFAPVAAVSLPLARCTSTTRFGLPRSRSPLPSGTFTSLGIKAFNRLCCLPVHLTNPPDFLSLPVARPNESWGYGSSFQVRYVSADLL
Ga0210345_144187Ga0210345_1441872F001296MEVAERRQLLRASEKPLRATGSGPEAASGEPGSIDPAAGENGHRGAERRIVRRSCLRSSMPCMPVVSQAGNQVT
Ga0210345_145379Ga0210345_1453792F001679MWGMSRRQEAMKGVEDCDKPGELVKRELIPGYPNDRRLNP
Ga0210345_145849Ga0210345_1458491F001296MGAAERRLALQGSEKPLRATGSGQKAASGEPGRFDPGAEKHSFRGAERRIVRRFCSQCSMPCMPVESKAGNQVTWN
Ga0210345_145849Ga0210345_1458492F010923KERAAGSERESGGFVRRTGRQQTQLNALIPREAKVLEGSGDCGRGRPDRVKEVQRAPGSEAAATGATGLAAVEPKGGPGTESIWKEAK
Ga0210345_145963Ga0210345_1459632F000344MRPKSAHAALSGVGEHPARESESAKWSADGKERVANAH
Ga0210345_146734Ga0210345_1467342F024439AGLRPVVGTDKSVEAPPGVSASPQLVDRDVAVPGTTLSGLTGLSERSARRSGAIGSPPPPRRLYDHEEFRRSAIRAVRRPPGSSRRLRRPLRVRAEVPSPAMPGQVAPPGVSCPFSGISGGIRITRVCLTRHVPSSGFLAPSTVSSPSGLADSLGPLPLMGFPLVQLFRAAGP
Ga0210345_147249Ga0210345_1472492F025295IKVTGPGEATELLRRRKVLIPEKLKFLTRKSNLQKPI
Ga0210345_149570Ga0210345_1495701F062310MSGLRKKLNSLDTELGLMEMVLAGIKRALTRQPFSVSQDLRNLAAAQEAIGWTNLFKGRISKQWIERQQHHIGDKATTKNNALNWATTVINCFFTQWFKVWDQRNLDRHGNDYQGHVNKLKDVAFREMTHLYTFEEAFPDDIRWLFQTPLEECLHW
Ga0210345_150156Ga0210345_1501561F075465RGQAYSLILGQCTQLLQDKMKQDADWTTVSTSYDPLTLFRLIEKTVLAQTEDQYPFATVYDQEHAFYSFRQETLTNPQWYEKFNTRIDVAEAIGVTRNHKALLEYVAKDVHKKKFADLGAAIQEAVRVDAEERYRAYVFLRQSGAQHANLRTVLQNDFTTGDDHYPKNRQSALHLLDKFSKTTVSKATTQSEGTAF
Ga0210345_150554Ga0210345_1505541F034767MKKILIATFDIVRGINATVWGGVEGAEKTAKIVKTGLSGADIVIGTSHALEDASCQDYVCATIDVIGSVSSAAGMVLGNIPATKPYTVVTGSVTVACRTVRWYCKNYGTFWGCTVAAGQGLQAGAKFVINKL
Ga0210345_150732Ga0210345_1507321F042669AILKNVGFKNTTHEKNIYSGTFCGEKVLLVRQVDDFALGCRQESTAKSVYATIGAKLTLHNEAEAPFEYLGLVDSFDGYDVLQTRDYIKLSAESYIRRLLKAHGWENPSPRESSNKPKPPLHESDVANLFNMAAGPVENTPEHKALEAEHGFGYRSVLGEILFAYVLCRPDIGYAVTTLAKFSTAPNALHYKSLKHLAIYLRQTQDWGI
Ga0210345_152338Ga0210345_1523381F004323MPLGGSRRSEGRATPAVAIHSPVTRDYPSRALSDVFQAAA
Ga0210345_154078Ga0210345_1540781F014988MDVYALECIEFLLLTFNEDTAMSFAPSSPVTGAAQTGFTSPTYTLTSDIAPSPNGEQYAVTALGGTQTGVASHSVSKPFTITMFKPQTLKTLPQANPLTGVVKNVPLNTYKVITRKGMQPAANNVDIVARVTTVIDVPAGADTYEPEEIRAMLSAHIGTLWAEADGIGDTCVSGIL

 ⦗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.