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 3300021293

3300021293: Metatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Washington, United States ? S.589 (Metagenome Metatranscriptome)



Overview

Basic Information
IMG/M Taxon OID3300021293 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)
Gs0114516 | Gp0225742 | Ga0210358
Sample NameMetatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Washington, United States ? S.589 (Metagenome Metatranscriptome)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size39942751
Sequencing Scaffolds27
Novel Protein Genes31
Associated Families30

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
Not Available17
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Chaetocerotophycidae → Leptocylindrales → Leptocylindraceae → Leptocylindrus → Leptocylindrus aporus1
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta1
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Bacillariales → Bacillariaceae → Pseudo-nitzschia → Pseudo-nitzschia australis1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria1
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Thalassiosiraceae → Thalassiosira → Thalassiosira pseudonana1
All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Leviviricetes1
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Naviculales → Naviculaceae → Fistulifera → Fistulifera solaris4

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: Washington
CoordinatesLat. (o)46.286Long. (o)-124.052Alt. (m)N/ADepth (m)0
Location on Map
Zoom:    Powered by OpenStreetMap ©


Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000073Metagenome / Metatranscriptome2639Y
F002996Metagenome / Metatranscriptome514Y
F005443Metagenome / Metatranscriptome400Y
F012678Metagenome / Metatranscriptome278Y
F017072Metagenome / Metatranscriptome243Y
F017093Metagenome / Metatranscriptome242Y
F017955Metagenome / Metatranscriptome237Y
F021217Metagenome / Metatranscriptome219Y
F022124Metagenome / Metatranscriptome215Y
F025295Metagenome / Metatranscriptome202Y
F027700Metagenome / Metatranscriptome193Y
F031322Metagenome / Metatranscriptome182Y
F033058Metagenome / Metatranscriptome178Y
F035541Metagenome / Metatranscriptome172Y
F038082Metagenome / Metatranscriptome166Y
F042355Metagenome / Metatranscriptome158Y
F053809Metagenome / Metatranscriptome140N
F055433Metagenome / Metatranscriptome138Y
F057770Metagenome / Metatranscriptome136Y
F062310Metagenome / Metatranscriptome130Y
F063220Metagenome / Metatranscriptome129Y
F064269Metagenome / Metatranscriptome128Y
F067276Metagenome / Metatranscriptome125Y
F068326Metagenome / Metatranscriptome124Y
F074319Metagenome / Metatranscriptome119Y
F076772Metagenome / Metatranscriptome117Y
F077370Metatranscriptome117Y
F079410Metagenome / Metatranscriptome115Y
F082867Metagenome / Metatranscriptome113Y
F084398Metagenome / Metatranscriptome112N

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0210358_100486Not Available562Open in IMG/M
Ga0210358_108955All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Chaetocerotophycidae → Leptocylindrales → Leptocylindraceae → Leptocylindrus → Leptocylindrus aporus654Open in IMG/M
Ga0210358_109936Not Available555Open in IMG/M
Ga0210358_110912All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta552Open in IMG/M
Ga0210358_115715Not Available716Open in IMG/M
Ga0210358_117037All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Bacillariales → Bacillariaceae → Pseudo-nitzschia → Pseudo-nitzschia australis663Open in IMG/M
Ga0210358_117833Not Available811Open in IMG/M
Ga0210358_123793Not Available504Open in IMG/M
Ga0210358_123820All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria636Open in IMG/M
Ga0210358_128319Not Available565Open in IMG/M
Ga0210358_129167Not Available719Open in IMG/M
Ga0210358_134855Not Available924Open in IMG/M
Ga0210358_142029Not Available515Open in IMG/M
Ga0210358_146741Not Available639Open in IMG/M
Ga0210358_147865Not Available1064Open in IMG/M
Ga0210358_148345Not Available707Open in IMG/M
Ga0210358_148879All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Thalassiosiraceae → Thalassiosira → Thalassiosira pseudonana580Open in IMG/M
Ga0210358_151576All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Leviviricetes1517Open in IMG/M
Ga0210358_155674Not Available690Open in IMG/M
Ga0210358_169023Not Available695Open in IMG/M
Ga0210358_172677All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Naviculales → Naviculaceae → Fistulifera → Fistulifera solaris776Open in IMG/M
Ga0210358_173868All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Naviculales → Naviculaceae → Fistulifera → Fistulifera solaris573Open in IMG/M
Ga0210358_178454Not Available645Open in IMG/M
Ga0210358_178538All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Naviculales → Naviculaceae → Fistulifera → Fistulifera solaris598Open in IMG/M
Ga0210358_184033All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Naviculales → Naviculaceae → Fistulifera → Fistulifera solaris676Open in IMG/M
Ga0210358_185927Not Available682Open in IMG/M
Ga0210358_191793Not Available802Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0210358_100486Ga0210358_1004861F027700AKAERLLWHQRLAHCGDEQLCRAHMFSDGIPEITRGKDSALDSCPVCLAANMRSRNRGDGETRTATEPGQGLSLDFSFAGQHSKNATDPKKMRINDYMGVHGETCYLLLYDHATERLDGVCRQSKAPPLAWLKRWLKKDVKDEVKDRYVYMDGGPRRRAIQIQSN
Ga0210358_107060Ga0210358_1070601F064269MFMIPVLLAVCMVFACVPEVLYWLFGINTKRSTSRKLKSLIPTTLVNVKRYLGSTLHYFLSSTYNVVNTLLLPTKEQRLQRPSKRKALDRMFFMFLLMNHGRVSAKSARRTSYRGRPGLSEIPQAIPQDLSAEMLAPWDNIPQGWSQRLLNGNKLKQFDPDNVIPVSEKIDPNIGTINPASWLIQGAPSL
Ga0210358_108955Ga0210358_1089551F017955MLNASFQADWQFIKEQKQRLIVQNNKRENAKRKPHTYNVGDVVVVKAGVKRKHGSNPYLDPMRITQVNDNGTVKLVKVAENNGGAVSQTWNIRNIEPRMA
Ga0210358_109936Ga0210358_1099361F068326MNEARNLGVSNVTLRNWVGLNNSSSIIDYTTLQQNISSDEIDLTESERCRTFSNDIPGYHKTLLESSGVKDNVKDLNYSSAHCLHQNIQTLAHYLIDKIDTLQKTQLDIHHIEIITDRVFHNIEKLKNENRVNNSYVQSLENRTRNLEAKIDVLLMQNEIITQKCTKFELL
Ga0210358_110912Ga0210358_1109122F084398MARLELTLNFPKSFHIKTFNVKSEKKLSPLAKLILQNVQFKHFYYVRDDISYLLKSNPIERDFLLQALYSIVISLQNNLSVNFFDM
Ga0210358_115715Ga0210358_1157151F082867MPKKRSSRRVHHINDINHNDTNITVQYRVVKPLTFTSNTLVLSVNPSLTDLSNTLATIYRQYRITELSFTFQCSDVAGAYALAMQYVPQIGGNPSTLPTALNEFEGPAVGYCETGRGREYTYKVPGHVLNAMGLNYYSTRISVSPPQDDDLITQGLMVFLTSTPATPIIAYMHVKYEFQTLEDPSFLAKLVNGDEKKENDTLVVPRMTRSPGGELWN
Ga0210358_117037Ga0210358_1170371F076772YASHKSTLKNVKGAYLVGINGKKVFSKEDAISMLRQLHDERAENLQLELAIERKLSSAEAWRAVAEHNIMDPSAVPDVDHHHQLTLADIRSISAVRYPHLDFSEASISTEEMEMVVQAIQSQAITPAEQAIGRFTRRKLRSLSTWDQWRAGEHKQLDHFHDLKMYGEPVRKPPGAIVLRPHWQYSIKRDGYRRSRNCCDGSPRSAPLLHGIASTYSSCVE
Ga0210358_117833Ga0210358_1178331F025295IMVTGPGEAAELLRRREVLIPKTLKFVTRKSNLQKLI
Ga0210358_123793Ga0210358_1237931F017072MRMRDLAVGSDEKPLRTESSSPETFRFRMNRSHPEGEQLLLCISTVRAALAESNQIEAAQRKTPKGGQKERGHREEHGNSAGSVKNFQAPAMLKTTPLDCEIKCNLREKRRDPWFRANASSKAMADPGLVVKTRTRD
Ga0210358_123820Ga0210358_1238203F012678MRSQHSLEEIAELYGLLENIKKEYEDGIHSVLRKSNPELFSNPHTIPKLKKLVLIED
Ga0210358_128319Ga0210358_1283191F057770DNAEGYVPIKCYYTPGIPNFILSPNSFKALLGKHYNGYKLECDDDKKSFRFSLNHKMRKSGSVLLRGTTRGGLCYTRSAVPPMPTTEGTAEMSLDMADRAAISMVEDHPKNLYRHEMKLHALSAKAERLLWHQRLAHCGDEQLCRAHMFSDGVPEITRGKDSALDNCPVCLAANMRSRNRGDGETRT
Ga0210358_128627Ga0210358_1286271F000073DGLSEEDKKNFALTGGKVSTPSENLKLTQTFQAWMDVHSNFRDICEDGKGKLQWERDIPQEALDNLQSLANSDFNANLGKIIHDIYLTGHNLFKDMPQGDHKKRAKYRFASKTLMRILPDGIKEECEALIAKETMTLDLYEILGQCTWGKTPKQAAA
Ga0210358_129167Ga0210358_1291671F035541GMYGCPSKICSIYGFKVIFIRELPTIRRSHVKRLVLIVSLAILALLVAAPVYAGATTDLNNIPITDTLDEGTFEWDVTGRYNEDIGRGRKVDTRLFGALFNNFEFGMSWGVSRRPSAGPVEFSVKYKILDEYDGNFPVSLAIGAMGITGNYQRTGFDPTYYGVIGIHDVHLGGWWDWYVGVANNPTGFDDEDSSLFGGFKYWFDEDLQFNADYWGTNENENYILSGGFNYDWVNHIGFQ
Ga0210358_134855Ga0210358_1348552F055433MTVVAMSSLFSFQSPSTACITSVGEQAFLVGSLVGRMAGTLLIGGVSESLALITD
Ga0210358_138647Ga0210358_1386471F038082MNEPKAKRDLIQSGFDIEFSTRMGAHIKRENFLQSNLPKAFAYIMHDYCTDGLKTRLVALPDFTTSIQDDPLALLKAIKTCVHENAVTQHPPVTIHQHWSRLLRLTQNSDEDPPTYAKRFEQQLDTVKGYVGNTFTDGFAEHMPEHKANAHKHDTSKIAALLAAHATDDSARQALAADLHELFSHHKPKETQAQLDIEAQAQLEFDACLFLQSASKAKCGSLLIL
Ga0210358_142029Ga0210358_1420291F021217NKNPCRIRLICADGKTPIVPEGYGTVRIPADNAEGYVPIKCYYTPDIPNFILSPNSFKALLGKHYNGYKLECDDDKKTFRFSLNHKMRKSGSVLLRGTTRGGLCYTRSAVPPMPTTEGTAEMSLDMADKAAISMVEDHPKNSYPHEMKLHALSAKAERLLWHQRLAHCGDE
Ga0210358_146741Ga0210358_1467411F033058MNRRRVLIWFAGRWRNHQSKRAEKPHSKSSSGDALDGPATRPETPLAVENSVGKPAAPEAPNAGTGKREWRTPIP
Ga0210358_147865Ga0210358_1478651F062310LMEMVLAGIKSALTRQPFSVSQDLRNLAAAQEAIGWTNLFKGRISKQWIERQRHHIGDKATTKNNALNWATTVIDYFFTQWFKVWDQRNLDRHGNDYQGRANKLKDVAFREMTHLYTFEEAVPEDIRWLFQTPLEECLHWPLFRQRAWITNWEHIIKKEYATQMETG
Ga0210358_148345Ga0210358_1483451F067276DASSLFDLLHDDPEFDSIRLNSVVVLRVPEEVITIDDLEEDEWTDEESIEDKAYKNVQELQISEVATGSILTANRYEAHLDGGSQASTTNDKAVLWGFKWYTDKNPCRVRLICADGKTPIVPEGYGTVRIPADNAEGYVPIKCYYTPDIPNFILSPNSFKALLGKHYNGYKLECDDDKKSFRFSLNHKMRKSGSVLLRGKTRGGLCYTRPAVPPMPTTEGTAEMSLDMADKAAIS
Ga0210358_148879Ga0210358_1488791F002996ANEIAIENSKTGKVTAVVAILKVFGDNTRNWRNANPGKLLNKPNKRLNSKKKHLNRALKRPNELNESVSDISERLIVKQKTIRVLLDTGSSGDLLFVRKGSQKYIPTLKRAVPQSWGTSNGTFKTKKVGEITLSFAEYSLSKSVHLTPDIVEDDAGATAPLYDLIIGKQTLHNIGAVLDFKEKTITIDSILL
Ga0210358_151576Ga0210358_1515761F005443MLSYTLNTNEVKNSAGTEIEFQSWKQSDRYRIYAQVNEGPSAPNHLTISHQESGTGLKRRRRSVVRVDKTTQSGIDPTLPITTSAYLVLDHPVGASSDNAEAANVIAQVLSFCASLGASTTILYDGTGNGATALLQGSL
Ga0210358_155674Ga0210358_1556741F053809DQLPLLHLHVNYLSQLQLINRCCLHDFDVLSGKRHTRGAGAIRVAKIGAAYAEDRIRAHLGALIVDNNDLLAEWFRLKTYTDGHTPLICSNRPALQMNTMPFDTHGVCTIQGDGIPHPADMRSTIQIIERILLPHAQSAARCCTITDYRNHNAAYMCVREFVRETKRSLDDVRGRLYYLQYDEIDLWRSVQNFEYNIEDSSTIIHELFANTQPTQPFSQVVTPTTNGVAH
Ga0210358_169023Ga0210358_1690231F077370QPRIVNNKQSRNRRNNRKRILKNNSHQLAVPRPMSILGKTNDRAIDILVNIFAVNSLGTPFYSFAVSAGSPQVSANLTDLMILQFTEYSELAQIYGLVKLKKIQLGFTRSSNYIGGGTTILQNTPSIFLQASTIPYNVGTVSLQRAIAQSDNSIEIDLQTYDPKSYDILLPPHIVSNNRANNQTFAFGSQTWISTRLNNVQNFPDLFLNLGSLATPTFDPSTTSGNSVLIG
Ga0210358_170639Ga0210358_1706391F063220VNTSTTNYAPFATVQEKIATHIQKSYDSGHDLAKSIRTGTLVDLSKEQPIRKLASMSEPKAKRDLIQSGFDIEFSTRMGAHIKRENFLQSNLPKAFAYIMNDYCTDGLKTRLSALPDYLTSIQDDPLALLKAIKTCVHENAVTQYPPVTIQQHWSRLLQLKQSSDEDPPTYAKRFEQQLETVKGYVG
Ga0210358_172677Ga0210358_1726771F031322NTDKNILWYDTETHAVKIAKHVRFDEGMNDLPPDLVPPNVVHLQRTQNGEPLPAETKETSVDQFTFHLNPFSYTMVKGVPVTDNDPSFGLTLASDKLSHRAYVTDVKENSTADKMYASHKSTLRNVKGAYLVGINGKKVLSKEDAISMLRQLHDERAENLQLELAIERKLSSAKAWRAVAEHNIMDPSAVQDVDHHHQLTLADIRSISAV
Ga0210358_173868Ga0210358_1738681F079410RRDATESAHQKLHGEKDNLGLLRTFGCRLWVKILAWQNRAKYIQDTKKGIFLGYRTNTLKNVVWYDPLTDRVKYGYHVRFDEGFNDLPLSKLPPNVVLMDRREERIPAETLTITIPPFTTSEHPFFDKDDVTVKVVCDSDLYGFELREDDCMKRVYISDFKKDGKGTKGRRSCNTICSTEQATRRKYRGAH
Ga0210358_178454Ga0210358_1784541F042355MSTDLKQINKAKKNLRRTDTVNEPKFVERLIKISRVSKVTKG
Ga0210358_178538Ga0210358_1785381F074319LANIRSISAVWYPHLDFSEASVSTEEMEMVVQAIQSQAITPPEQAIGRFTRRKLQSLSTWDQWRAGEHKQLDHFHDLKMYGEPVRKPPGAFVLRPHWQYSIKRDGTRRSRNCCDGSPRSAPLLHGIASTYSSCVEQPVQRLFFALAARENYRVYGGDAQDAYAHSPPPETPTFVSIDNAYADWYEHRFKKKLDRSLVLP
Ga0210358_184033Ga0210358_1840331F022124EPVDVQCDDDNPDAIRAQIDTGAHVSCTDQLHMLHGHRKFTRSRPSPVKLMPATVDSDAVRKGIGYLHVPAKNAQGHLAVPTFHTPCLRTTVIDERDLVKAAKVNVKDIRSDSITKHKDAGTFTYHARHRMKSSKDVIVHGVLIDDKCYTGALISPDLSPSDPKATPSTSSILAMESDPDFAEQCCKATILAVHGYNEAVETQLRDEMTKLPMQFHTLPFHEYIQ
Ga0210358_185927Ga0210358_1859271F017093MQPSRKHGSNPYLGPMRITQVYDNGTVKLVKVADNNGGAVSQTWNIRNIEPRMA
Ga0210358_191793Ga0210358_1917932F025295GNWPGKATELLRRREVLDPEKLKFITRKSDSQKPI

 ⦗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.