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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| IMG/M Taxon OID | 3300030716 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0135150 | Gp0323841 | Ga0307920 |
| Sample Name | Metatranscriptome of soil microbial communities from Risofladan, Vaasa, Finland - OX-2 (Metagenome Metatranscriptome) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 52471223 |
| Sequencing Scaffolds | 38 |
| Novel Protein Genes | 38 |
| Associated Families | 34 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria | 1 |
| All Organisms → cellular organisms → Bacteria → Acidobacteria | 3 |
| All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 2 |
| Not Available | 15 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → Acetobacteraceae → Oleomonas → Oleomonas cavernae | 1 |
| All Organisms → cellular organisms → Bacteria | 6 |
| All Organisms → cellular organisms → Archaea → environmental samples → uncultured archaeon | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Acidimicrobiia → Acidimicrobiales | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → unclassified Chloroflexi → Chloroflexi bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Nevskiales → Steroidobacteraceae → unclassified Steroidobacteraceae → Steroidobacteraceae bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → Azospirillaceae → Skermanella | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → Azospirillaceae → Skermanella → Skermanella aerolata | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → Rhodospirillaceae → unclassified Rhodospirillaceae → Rhodospirillaceae bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Patescibacteria group → Parcubacteria group → Candidatus Parcubacteria → unclassified Parcubacteria → Candidatus Parcubacteria bacterium | 1 |
| Ecosystem Assignment (GOLD) | |
|---|---|
| Name | Soil Microbial Communities From Risofladan, Vaasa, Finland |
| Type | Environmental |
| Taxonomy | Environmental → Terrestrial → Soil → Clay → Unclassified → Soil → Soil Microbial Communities From Risofladan, Vaasa, Finland |
| Alternative Ecosystem Assignments | |
|---|---|
| Environment Ontology (ENVO) | terrestrial biome → land → acidic soil |
| Earth Microbiome Project Ontology (EMPO) | Unclassified |
| Location Information | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location | Finland: Risofladan, Vaasa | |||||||
| Coordinates | Lat. (o) | 63.0472 | Long. (o) | 21.7116 | Alt. (m) | N/A | Depth (m) | 0 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000409 | Metagenome / Metatranscriptome | 1171 | Y |
| F001819 | Metagenome / Metatranscriptome | 630 | Y |
| F002089 | Metagenome / Metatranscriptome | 595 | Y |
| F002916 | Metagenome / Metatranscriptome | 521 | Y |
| F004386 | Metagenome / Metatranscriptome | 440 | Y |
| F005419 | Metagenome / Metatranscriptome | 401 | Y |
| F005983 | Metagenome / Metatranscriptome | 384 | Y |
| F007657 | Metagenome / Metatranscriptome | 347 | Y |
| F010336 | Metagenome / Metatranscriptome | 305 | Y |
| F010675 | Metagenome / Metatranscriptome | 300 | Y |
| F011100 | Metagenome / Metatranscriptome | 295 | Y |
| F012043 | Metagenome / Metatranscriptome | 284 | Y |
| F014123 | Metagenome / Metatranscriptome | 265 | Y |
| F014404 | Metagenome / Metatranscriptome | 263 | Y |
| F014727 | Metagenome / Metatranscriptome | 260 | Y |
| F015035 | Metagenome / Metatranscriptome | 258 | Y |
| F020597 | Metagenome / Metatranscriptome | 223 | Y |
| F027115 | Metagenome / Metatranscriptome | 195 | Y |
| F033813 | Metagenome / Metatranscriptome | 176 | Y |
| F036578 | Metagenome / Metatranscriptome | 169 | Y |
| F039445 | Metagenome / Metatranscriptome | 163 | Y |
| F045168 | Metagenome / Metatranscriptome | 153 | Y |
| F045442 | Metagenome / Metatranscriptome | 153 | Y |
| F047770 | Metagenome / Metatranscriptome | 149 | Y |
| F048454 | Metagenome / Metatranscriptome | 148 | Y |
| F055427 | Metagenome / Metatranscriptome | 138 | Y |
| F064288 | Metagenome / Metatranscriptome | 128 | Y |
| F064950 | Metagenome / Metatranscriptome | 128 | Y |
| F066796 | Metagenome / Metatranscriptome | 126 | Y |
| F067753 | Metagenome / Metatranscriptome | 125 | Y |
| F079054 | Metagenome / Metatranscriptome | 116 | Y |
| F092084 | Metagenome / Metatranscriptome | 107 | N |
| F103152 | Metagenome / Metatranscriptome | 101 | Y |
| F103668 | Metagenome / Metatranscriptome | 101 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0307920_100785 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria | 2923 | Open in IMG/M |
| Ga0307920_102867 | All Organisms → cellular organisms → Bacteria → Acidobacteria | 1603 | Open in IMG/M |
| Ga0307920_103653 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 1419 | Open in IMG/M |
| Ga0307920_104350 | Not Available | 1305 | Open in IMG/M |
| Ga0307920_106469 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → Acetobacteraceae → Oleomonas → Oleomonas cavernae | 1080 | Open in IMG/M |
| Ga0307920_106774 | Not Available | 1058 | Open in IMG/M |
| Ga0307920_107021 | All Organisms → cellular organisms → Bacteria → Acidobacteria | 1041 | Open in IMG/M |
| Ga0307920_108106 | All Organisms → cellular organisms → Bacteria | 972 | Open in IMG/M |
| Ga0307920_108439 | All Organisms → cellular organisms → Bacteria → Acidobacteria | 955 | Open in IMG/M |
| Ga0307920_109170 | All Organisms → cellular organisms → Archaea → environmental samples → uncultured archaeon | 919 | Open in IMG/M |
| Ga0307920_109188 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Acidimicrobiia → Acidimicrobiales | 918 | Open in IMG/M |
| Ga0307920_109319 | All Organisms → cellular organisms → Bacteria | 913 | Open in IMG/M |
| Ga0307920_111374 | Not Available | 830 | Open in IMG/M |
| Ga0307920_112032 | Not Available | 810 | Open in IMG/M |
| Ga0307920_112093 | Not Available | 808 | Open in IMG/M |
| Ga0307920_113166 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → unclassified Chloroflexi → Chloroflexi bacterium | 777 | Open in IMG/M |
| Ga0307920_113539 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 766 | Open in IMG/M |
| Ga0307920_113666 | All Organisms → cellular organisms → Bacteria | 763 | Open in IMG/M |
| Ga0307920_114687 | Not Available | 738 | Open in IMG/M |
| Ga0307920_115661 | Not Available | 716 | Open in IMG/M |
| Ga0307920_115817 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria | 713 | Open in IMG/M |
| Ga0307920_117478 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium | 680 | Open in IMG/M |
| Ga0307920_119448 | Not Available | 644 | Open in IMG/M |
| Ga0307920_119950 | Not Available | 637 | Open in IMG/M |
| Ga0307920_120565 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Nevskiales → Steroidobacteraceae → unclassified Steroidobacteraceae → Steroidobacteraceae bacterium | 628 | Open in IMG/M |
| Ga0307920_121188 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → Azospirillaceae → Skermanella | 619 | Open in IMG/M |
| Ga0307920_123344 | All Organisms → cellular organisms → Bacteria | 590 | Open in IMG/M |
| Ga0307920_123663 | Not Available | 586 | Open in IMG/M |
| Ga0307920_124167 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → Azospirillaceae → Skermanella → Skermanella aerolata | 580 | Open in IMG/M |
| Ga0307920_125665 | All Organisms → cellular organisms → Bacteria | 564 | Open in IMG/M |
| Ga0307920_128196 | Not Available | 540 | Open in IMG/M |
| Ga0307920_130766 | Not Available | 519 | Open in IMG/M |
| Ga0307920_130825 | Not Available | 518 | Open in IMG/M |
| Ga0307920_130903 | Not Available | 517 | Open in IMG/M |
| Ga0307920_131081 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → Rhodospirillaceae → unclassified Rhodospirillaceae → Rhodospirillaceae bacterium | 516 | Open in IMG/M |
| Ga0307920_131566 | All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Patescibacteria group → Parcubacteria group → Candidatus Parcubacteria → unclassified Parcubacteria → Candidatus Parcubacteria bacterium | 512 | Open in IMG/M |
| Ga0307920_133038 | Not Available | 502 | Open in IMG/M |
| Ga0307920_133200 | All Organisms → cellular organisms → Bacteria | 501 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0307920_100785 | Ga0307920_1007852 | F002089 | MGKDRLDLHALFEAAGNEPAEREGVLDAIDDLTRTGMLNACGSDFYMLTERGKGTIPQS |
| Ga0307920_102867 | Ga0307920_1028671 | F002916 | MTFLPGRTVQCVNPECAARGHWLRLDAMPVERCSNCNSPLRNVPPPLAPRFRMRPRPLASYRPRAR |
| Ga0307920_103653 | Ga0307920_1036531 | F045168 | IQDYIQCYNRNPRPFQWVASASKIIRKVNKYKETLETGD |
| Ga0307920_104350 | Ga0307920_1043501 | F012043 | MSEQPRSFESTAAVSSIFERIKPLQDQLAGLTHILEPMQQLALLAGVFQPLKEFEGQIEELAKVLEPMHNFRNQLRTVLQQFSPLQDLNSQLDQLAVAFGESLRQLTEALEPAATLQDRLADLVSAFEPAKILHQEFSALADSFDGKSQRLAQ |
| Ga0307920_106469 | Ga0307920_1064691 | F007657 | MSWVTFEVAGGGLVAVQPAHVVAIYDEQGAVKLATAAGGVHILKDITVQRATAIVSRAADADATRSS |
| Ga0307920_106774 | Ga0307920_1067742 | F067753 | SDCKISGLGMKYSKAKGKRGKKASVDSVAIARDMVPRRPPPLTDQLQVGMTLRFTTTANWGGSYTVTWANLLDAWFVAGTATTAYQLFDFVKIKKVVVRAMGIAATVVPALMPEATVGVEFPGLVGGQFGSGKQRIGTGVGSTDPAYVELRPDPLSQSAQYQPSTANAAFIVRASDGARQAIQGAVIDVQVSYKNSGDVSPAAVTTARAALQPGQIYFGGLDGLAAASTVARTSFIPFA |
| Ga0307920_107021 | Ga0307920_1070213 | F064950 | SNTMTPQSDPQCPRKQRRTTLRAFYVFVLVAIVLFSVAVRPNQPGQRELAALGIFASVAAIWSFIRFLRAADAHQKLINHEATSFAFVASLLLTLAVGLLQRFGILSGASLLVPALMIAFWSIGLILSSWRYQ |
| Ga0307920_108106 | Ga0307920_1081061 | F000409 | MTNERKIWEAALLLVRRHGADAVSIAEREAERLRGGDDDLTCVVWCWIARSTAELLRPVPGAGELIH |
| Ga0307920_108439 | Ga0307920_1084391 | F020597 | VSHETLVQFVRFEAKAVGREYTFTVREPSTDPREFTLTISNQAFNERRVRFQDAPDVCSAKLRHELATYANHPPSTHYLITDADLEDYRSSHAPRTANRPSFYRKPT |
| Ga0307920_109170 | Ga0307920_1091702 | F027115 | MTGSNPSAMNVGNVLTAQAILFDKELIPNLKGQTDAFLAAAEKRVQGLHMGINRTMYQYETLGASTASATDGSIANPETISQLSIAAQVGEHNNYANFSAMSVAAAIDDLPGNSAVELGYQAGQSISELYSSVADSAAGVDPTVEQSGLLVSPFTLDLGTIREL |
| Ga0307920_109188 | Ga0307920_1091881 | F011100 | MGLPGMVLSAIATAVGAIMYWAVTYQGTGFRLSTVGIILMIAGVAGFIVSSIIFGMSRQSVGAGHHTMDRQVVDPQGHTSSLHEETKG |
| Ga0307920_109319 | Ga0307920_1093192 | F039445 | MDSDNLTSADNQQVGWRRATYPNDHNESPVALQRVMVWSELHGDMQIEAEMTSRRQFRP |
| Ga0307920_111374 | Ga0307920_1113742 | F079054 | MLSRQVIAYYGLIRASESLPATYEFATEAAAPKDIGFGWESRGSPIYSAGLCARAASHTPVAPKSANDCCFLFGISLRLGVTVSATTLEISRLQSSLIPFNPQELLRPASWLALLSRTFTFELAPTRSPSIGVEYDYVGIQSIPSTGLSPASPTALWAAGHRPSPPDTDLPPTFPFRRKAVRRGRPMFT |
| Ga0307920_112032 | Ga0307920_1120321 | F036578 | MPEELVNPASPLNLSIQLQRDRANQPDPIFPQSPGIILETNTAIFQPPLPAS |
| Ga0307920_112093 | Ga0307920_1120931 | F066796 | NPLVETGASEVHAVIQVETSPSVAGDLVNIDSSQLSASCQGVRYENLQGLSDVSAPNENSDRIDAVLDNDGNATVVVEGWDCAPGTSVVEADLEVAPFYTALTTLVALPPAVTPEGVTGYPQIAGTAQEVETGDTSMSGDSNVYAVFYVETNPVYAEQTVEISSSQLEGRCILGWRWEPGNPTGIGVGPGYSGDLWGQGVNTGTRPSTTLDDDGNATFTFKGTSCASGPSQVIADVLAGTHQTYVTTFTVDPPAPTI |
| Ga0307920_113166 | Ga0307920_1131662 | F010675 | MRAIWLLNTIEVDLSHLGIPLMRVPSSMRDLGDALKSMSEHDRQLIEGELSRAHASLAQVVDELQTGMVEIETLLHRPAPALPVEQAEPVSEQDITESTRSVVWQK |
| Ga0307920_113539 | Ga0307920_1135392 | F005419 | MILPLRGGNSGKEVLIVAAGVTEAAGERAGLQASRGSRGTGKLQTGQANRAEERRFFLAKHGGGSGVPELGEEFPGEAEAMVESLKTGLSYFVVSEWRGLADFSGKKPQLGREAVRAAPKTG |
| Ga0307920_113666 | Ga0307920_1136661 | F004386 | NVTYSPNAYTACSPVWEVSKTGFSESAAFNAMLTDSATGGPLVMHAGETITDHQYVTAAKDGMHITVTDLTTGHSGTIILNSKIDGPLMPAFDVQKLGNALSWGLVNDAPNSLVWEIGHTGDYTTPAGQYCLPGSATKPPCYSYDVPTWLQFKPLQILGVKFGDGTSPKAWSAVSDFGGEAEVNQYCGAANYGTPFCTYPFYASSSSTQTHTFGGDYPGMNKDFGGALQFQQTKQCLSPLGGFPQYCSTILR |
| Ga0307920_114687 | Ga0307920_1146871 | F067753 | EGPCRTCGRRSGHGPSSAAFLDGPTAGWLILRFMTTSLWTGSYMVTWANLLDAWFVAGTATTAYQLFDFVKVKKVVVRAMGIAATVTPALMPEATVGVEFPGLVGGQFGSGKQRIGSGVGSTDPAYVELRPDPLSQTAQYQPSTANAAFIVRASDGARQPIQGAVIDVQVSYKNSGDVSPAAVTTARAALQPGQIYFGGLDGLASANTVARTAFIPFA |
| Ga0307920_115661 | Ga0307920_1156611 | F067753 | AGLYFHGVFFAMRKQKRGGKPVTSNTAVMRDEDPRVLPMLTDQLSVGMTLRFATSGIWPGQYTVTYENLLDAWFIAGTATNAYQLFDFVKIRKVVVRGVGAADPTALLGPTSSVGIEFPGLVGGQFGSGKQRLGVGLGYNEPGLVSLKPDRMSQSAQYQPSTSNAAFIVRATDARRNPLAGAIIDVIVSYKNSGDINPAAVATARAGMTPGQIYFGALDGLAPANTVAKSMFIPVA |
| Ga0307920_115817 | Ga0307920_1158172 | F048454 | ALERLCELSGARWVYDSDRLQEMRRDVMTILTHHAANRPAAYAPYGQMLMGGAG |
| Ga0307920_117478 | Ga0307920_1174782 | F015035 | FVERHVERGIAPDEILKGPIPVTQQDPYPIGQRLFMLDERLTGLIVNNLHRRIVERKAAARAG |
| Ga0307920_119448 | Ga0307920_1194481 | F103152 | MGLRPDDRRYCLGSDCELRLGICVCFRLFNVVPETTARFSRIQCQSRIQSPP |
| Ga0307920_119950 | Ga0307920_1199501 | F036578 | MPEELVNPASPNLSIRFQRDRANQPDPIFPQSPGIIL |
| Ga0307920_120565 | Ga0307920_1205652 | F055427 | VSVSIRDCKHSKKDRQWIQDVYGEYLESLSTLNTGFFPAVGADNPH |
| Ga0307920_121188 | Ga0307920_1211881 | F010336 | MERKMSVRLKLEDSSEGLVATISQRDDAGKVTGNPAIFLVGTKEEAKERAKALARTLGLKTYGIVDRTAAGSLHAS |
| Ga0307920_123344 | Ga0307920_1233442 | F045442 | IPTRAGGVEITRVLATLDLIGTKTPHGIVICAARLGTNDLEETIAWWSEQNVPIWGVIPERVGIATGPEARLLREGLEQYDVILRRAIRAKK |
| Ga0307920_123663 | Ga0307920_1236631 | F067753 | WTNLLDAWFVAGTATTAYQLFDFVKVKKVSVRGMGVALVPVSNPLAPAAIVGVEFPGLIGGQFGSGKQRVGAGMGYDVPAMVIAKPDPLSQAAQFQPSTANAAFIVRAVDGLRNSLTGAIVDIQVVFKNSGDISPAAVTTARAGLTPGNLYFGGLDGLGSASTIAKSEFIPIA |
| Ga0307920_124167 | Ga0307920_1241672 | F103668 | ADGSTQQLAMEVIERPREQRDGLIRRLRDIYCAGITRSGQSPQIAGRMGDVLEARLRDQVTEIEVRGGGTVGTA |
| Ga0307920_125665 | Ga0307920_1256651 | F001819 | TQENTNFYATNFELGAISPLFIHQCSRSRWRIDTEVFQTITTNCHLKHPAVHQTTALVVLTMIRLLAYTLSLVFYHRQVCSHARGKGETFHECAKRIAYWFMALAANTS |
| Ga0307920_128196 | Ga0307920_1281962 | F005983 | MQADTKDDGLITYDFEEFCNDYGHPAGRLFTFEVTHHAVTYIYADVCGTVRGSEVVFCLNADDLVLTRKSH |
| Ga0307920_130766 | Ga0307920_1307661 | F014404 | MSESPLPFDAEIADHQVILRAGQVEAVVVPLEEYRALKALEQREAELYWVAHESRHPSRPGDDVPDGKVYDSMEALVADLGAGE |
| Ga0307920_130825 | Ga0307920_1308251 | F033813 | SWSAGSGRKKVKGVPRIIPGDWGKVRPGWLAQPLEDGFARD |
| Ga0307920_130903 | Ga0307920_1309031 | F014727 | MADLLSAKWPVAELSAVGLANGRSHLSAKEVAGLYDMKYSTFMKRLKDFVQYGEYPAAAFRVSRRLGPRKGNYWLIEIHPVLGVRALNKHFYPRLVV |
| Ga0307920_131081 | Ga0307920_1310811 | F014123 | RCGRTVRDMPVGKGDEMGRWIAIGKAPGWDDLAKFTDEMKATAKWRVDARTTITTVMALADGRMLAECHANKQEDFDTWLRQKGWQVESVTPIRHLAKTGEIWKVS |
| Ga0307920_131566 | Ga0307920_1315661 | F064288 | VIFHRSTVAAVLLLIAISLTGLLHAFAQTSSPADEDRPRVVVKKGHKIDLIYHASEAYLAAGTGLDMMTTVQNLGHPTTASSVNGAFLTHYYVQETGWAGMVGRQDATGVVLANVALNVGIDLLDRKLYRRGGKWRAVALSLNVLKGTDNLVCGINNIRMSN |
| Ga0307920_133038 | Ga0307920_1330382 | F092084 | MRFRIHQNHSIGSSCYHSDIKDKMSRPLNVKTVIVPKGQNEYGRDVVRFTADYAASDLFEQCIGCYPLVQNDLKDSWRGQDSPSPPLMIDPDVMTDEEVERWMAKYVRGNTNAFVKTTCQQI |
| Ga0307920_133200 | Ga0307920_1332002 | F047770 | MNEPIQEKTTTPPGLLPKHVQSWLILGLAVLMVVIMWLTGGKKQPTLPKTNASMVQTPLPLEVNETKITELQNRIQELQREQLAA |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |