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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 | 3300031828 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0128948 | Gp0290737 | Ga0316043 |
| Sample Name | Metatranscriptome of spruce roots microbial communities from Bohemian Forest, Czech Republic - CRU3 (Metagenome Metatranscriptome) (v2) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 53475897 |
| Sequencing Scaffolds | 31 |
| Novel Protein Genes | 31 |
| Associated Families | 29 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| Not Available | 23 |
| All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Acrogymnospermae → Pinopsida → Pinidae | 1 |
| All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → sordariomyceta → Sordariomycetes → Sordariomycetidae → Diaporthales → Gnomoniaceae → Ophiognomonia → Ophiognomonia clavigignenti-juglandacearum | 1 |
| All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Basidiomycota → Agaricomycotina → Agaricomycetes | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia | 1 |
| All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Acrogymnospermae → Pinopsida → Pinidae → Conifers I → Pinales → Pinaceae → Picea → Picea sitchensis | 1 |
| All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Basidiomycota → Agaricomycotina → Agaricomycetes → Agaricomycetidae → Agaricales → Mycenaceae → Mycena → Mycena venus | 1 |
| Ecosystem Assignment (GOLD) | |
|---|---|
| Name | Soil, Plant Litter And Rhizosphere Microbial Communities From European Coniferous Forests |
| Type | Environmental |
| Taxonomy | Environmental → Terrestrial → Soil → Unclassified → Unclassified → Soil → Soil, Plant Litter And Rhizosphere Microbial Communities From European Coniferous Forests |
| Alternative Ecosystem Assignments | |
|---|---|
| Environment Ontology (ENVO) | Unclassified |
| Earth Microbiome Project Ontology (EMPO) | Free-living → Non-saline → Soil (non-saline) |
| Location Information | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location | Czech Republic: South Bohemian Region | |||||||
| Coordinates | Lat. (o) | 49.0431 | Long. (o) | 13.617 | Alt. (m) | N/A | Depth (m) | N/A | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F001024 | Metagenome / Metatranscriptome | 803 | Y |
| F001380 | Metagenome / Metatranscriptome | 709 | Y |
| F003497 | Metagenome / Metatranscriptome | 483 | Y |
| F003812 | Metagenome / Metatranscriptome | 467 | Y |
| F006591 | Metagenome / Metatranscriptome | 369 | Y |
| F007311 | Metagenome / Metatranscriptome | 353 | Y |
| F018868 | Metagenome / Metatranscriptome | 232 | Y |
| F025750 | Metagenome / Metatranscriptome | 200 | Y |
| F029355 | Metagenome / Metatranscriptome | 188 | Y |
| F030100 | Metagenome / Metatranscriptome | 186 | Y |
| F036818 | Metagenome / Metatranscriptome | 169 | Y |
| F038944 | Metagenome / Metatranscriptome | 164 | Y |
| F050832 | Metagenome / Metatranscriptome | 144 | Y |
| F051483 | Metagenome / Metatranscriptome | 144 | Y |
| F058585 | Metagenome / Metatranscriptome | 134 | N |
| F059586 | Metagenome / Metatranscriptome | 133 | Y |
| F060406 | Metagenome / Metatranscriptome | 133 | N |
| F061214 | Metagenome / Metatranscriptome | 132 | Y |
| F062325 | Metagenome / Metatranscriptome | 130 | Y |
| F065397 | Metagenome / Metatranscriptome | 127 | Y |
| F067292 | Metagenome / Metatranscriptome | 125 | N |
| F068527 | Metagenome / Metatranscriptome | 124 | N |
| F068861 | Metagenome / Metatranscriptome | 124 | Y |
| F079670 | Metagenome / Metatranscriptome | 115 | N |
| F086415 | Metagenome / Metatranscriptome | 110 | N |
| F097372 | Metagenome / Metatranscriptome | 104 | N |
| F102190 | Metagenome / Metatranscriptome | 101 | Y |
| F102239 | Metagenome / Metatranscriptome | 101 | Y |
| F102319 | Metagenome / Metatranscriptome | 101 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0316043_108171 | Not Available | 1477 | Open in IMG/M |
| Ga0316043_111132 | All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Acrogymnospermae → Pinopsida → Pinidae | 1205 | Open in IMG/M |
| Ga0316043_113621 | Not Available | 1038 | Open in IMG/M |
| Ga0316043_114636 | All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → sordariomyceta → Sordariomycetes → Sordariomycetidae → Diaporthales → Gnomoniaceae → Ophiognomonia → Ophiognomonia clavigignenti-juglandacearum | 979 | Open in IMG/M |
| Ga0316043_116218 | Not Available | 904 | Open in IMG/M |
| Ga0316043_117734 | Not Available | 840 | Open in IMG/M |
| Ga0316043_117892 | All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Basidiomycota → Agaricomycotina → Agaricomycetes | 834 | Open in IMG/M |
| Ga0316043_118126 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 826 | Open in IMG/M |
| Ga0316043_118697 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila | 805 | Open in IMG/M |
| Ga0316043_119003 | Not Available | 795 | Open in IMG/M |
| Ga0316043_120210 | Not Available | 752 | Open in IMG/M |
| Ga0316043_120976 | Not Available | 728 | Open in IMG/M |
| Ga0316043_121813 | Not Available | 704 | Open in IMG/M |
| Ga0316043_122137 | Not Available | 695 | Open in IMG/M |
| Ga0316043_122617 | Not Available | 683 | Open in IMG/M |
| Ga0316043_122850 | Not Available | 677 | Open in IMG/M |
| Ga0316043_125201 | Not Available | 625 | Open in IMG/M |
| Ga0316043_127050 | Not Available | 590 | Open in IMG/M |
| Ga0316043_127059 | Not Available | 589 | Open in IMG/M |
| Ga0316043_128014 | Not Available | 574 | Open in IMG/M |
| Ga0316043_128081 | Not Available | 573 | Open in IMG/M |
| Ga0316043_128200 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia | 571 | Open in IMG/M |
| Ga0316043_129363 | Not Available | 553 | Open in IMG/M |
| Ga0316043_129730 | Not Available | 548 | Open in IMG/M |
| Ga0316043_129944 | All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Acrogymnospermae → Pinopsida → Pinidae → Conifers I → Pinales → Pinaceae → Picea → Picea sitchensis | 545 | Open in IMG/M |
| Ga0316043_130356 | Not Available | 539 | Open in IMG/M |
| Ga0316043_130451 | Not Available | 538 | Open in IMG/M |
| Ga0316043_132351 | All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Basidiomycota → Agaricomycotina → Agaricomycetes → Agaricomycetidae → Agaricales → Mycenaceae → Mycena → Mycena venus | 514 | Open in IMG/M |
| Ga0316043_132495 | Not Available | 512 | Open in IMG/M |
| Ga0316043_132535 | Not Available | 511 | Open in IMG/M |
| Ga0316043_132899 | Not Available | 507 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0316043_108171 | Ga0316043_1081712 | F068861 | MPSLTSTRLIAEYGSDQDYKFAGAVQVKTATTLTTTFGAVMRYEPWTNAGAKELLRHHPIGVWKELSVRLAPRPGIYGRMCTFYGGWAAAGVVTPTTAEEMVALHGAIDVTYGGTGDPGTVKVQIPCEFDDTMKDLLKGPDNDNSRPVFFYAFTETDVVDKPANSDRFMLTFKGKYTLHGRY |
| Ga0316043_111132 | Ga0316043_1111322 | F102190 | MECVVKPLRDVKVTGSKTAGTKNPTMLRVGVAQTGCDPLVILTA |
| Ga0316043_113621 | Ga0316043_1136211 | F007311 | EKLSEIVVPSCWPPHFAVAPVTDYSMLDALRSPLRSDCSALRFLRPVPASDLTRRPTLSTPRLVQIAPHSTLCARAVHGSPRATDCSVVQHLELCPACGSLRPRWLTFHDALGLLLAHRFPPYGVPGLLRDRRVTLHAGLRIAPYSDALRPWPVHGFLRARS |
| Ga0316043_114636 | Ga0316043_1146361 | F061214 | VNSAQCRLVNGFAKLTNINLALKETPINGGLTDEGPKVAE |
| Ga0316043_116218 | Ga0316043_1162181 | F086415 | ERSEMPSIEQEPLPRDALSSARLRSFPVPRLGHRDSGSRRLFTPQEPLRTPEGPGPRPRAPLPTGDTLLWTSAPLADFCNLKQRAGTPNERSILTREWSFRSATRRHQPMPVALARDTLPHRGPASLDLHAPACARRVPLAWTGQIEGRGVRGKASRALLDDVARALLVAPRAPGSPVRLVMRSGGPRHSSHRPRSPFDASPRRATPSKEPGCLLPRWNPYASGGWLLRARLDRGLVTPPPERHCSETRAPLLPVLRRLLLTRKAPEPARLTVPGDRSPRNDQSQRPSRLLRPNQLAGRC |
| Ga0316043_117734 | Ga0316043_1177341 | F006591 | AARHTLFPMRRSLGAPPSQVGGRLLDASSRGNAELSVSWQDRRQNCFQRLLGEAFQHDSQVPCRGTVPYKVMRLLRRNLVTAVLEVGPRELPPERWPKGTGLASYPSIDI |
| Ga0316043_117892 | Ga0316043_1178921 | F058585 | RCMNRSPYKPQGPPGDKVAVLWEALTAHRPWYMKVGHSQYSRCCVLRLPQWPPSSFRWRCYHWLRWLSELRLASGPCTPARPVANLPARIGFVSFGSTGCKPPTCVDCSALPLVLRRSIWLAPDDPGLIGLAPDNPGSTRLAPHGPFLRLGRQPTSDSHRCRPLARLAASSGLRLLLPLPLGWLRLQFALAASPSGFTGREPLGLRLVAPSPAEPLMHSLFQLNLASPAKPSMSILYPLALASSGIFQLNNFRLGSAFALLVRPAIPLRLAPQVSPSV |
| Ga0316043_118126 | Ga0316043_1181261 | F051483 | MDNAARTRQRVLAIFLPVTAVLYISAEALSPKGTDQVISTTATALKVLPIAARHPAQLYVAGSLALLGFGGLAVSYAAIAALVRNRGS |
| Ga0316043_118697 | Ga0316043_1186971 | F038944 | MRSRPSHAAKSGVGEHTARESESAQQYAPGKSVWR |
| Ga0316043_119003 | Ga0316043_1190031 | F001024 | MRPVTPLAVENGVGKLAADRRPMPARERECGELPS |
| Ga0316043_120210 | Ga0316043_1202101 | F007311 | LHADCSALYIVRPVPVTDLTRCSTLSALLLPRIAPRLILCARAGRGSLRATDCSVVQHLELCTACGLLRTRYLAFRVVLGLLLARRFPLCVARGLLRARRLALDAGLRITPYADILRPYAVYGLLHIRH |
| Ga0316043_120976 | Ga0316043_1209761 | F102239 | VNFASAACLSACFWRSLVNQPDPAFPRSPGIILETNNLNLSTATARF |
| Ga0316043_121813 | Ga0316043_1218131 | F030100 | KTAQVSGIIPGDWGKVRPGWLAWLLLKEAARHIGGGRIHQFLWRRSRAVSKREKGTERRGAMRNRSEPGQVAQAGFEPE |
| Ga0316043_122137 | Ga0316043_1221371 | F067292 | DESVVQPLLRPLATPAADPQLALATASTGCAGFKPPTCVGCSTSGSTGGQPSGSDRCSVLRLDRWQAPGFHRLLCASVRPGADLPACAGVHPPARPATNCRLTPGADSSARLVPNFRLSPVVVAAFGLRLLLLRLLQLALGVARLPHRRRTSDSHRLLRRPASPVSTHSTCVGCFYFRLGLRCTPCFYRTLHRRQAVDEYSASAGSCTFRICQL |
| Ga0316043_122617 | Ga0316043_1226171 | F060406 | GELNSTTGCRVLRLPQRPTSRFRLRSRPLAALAPNLRLASPASHSSSTGGRLRRLGSTFCRSARTVANLRLSPALRASVRPLADLPTFVGVLPQARPRTNFRFAPDFDPSTRLVSNFRFAPVVVATSACAFCCCGLWLAPVPPVCQTGGELPTRIGCSSSGFTGFDSLGLRLVLLPPAGLLMHP |
| Ga0316043_122850 | Ga0316043_1228501 | F050832 | MVMDAAAANKTNLMKEEKDGPSRAMLRSILLSVLHV |
| Ga0316043_125201 | Ga0316043_1252011 | F025750 | MEKADAHRSIDPLPAKTGSGEQRAHVTPSLDAEFRPCMPVGERADRRVTWNLSFDLTP |
| Ga0316043_127050 | Ga0316043_1270501 | F018868 | MRSRTSHAAKSGVGEHAARESEAPNVCDGKERVASA |
| Ga0316043_127059 | Ga0316043_1270591 | F062325 | VVPSDPISSLAHHGHASVLSIAFRIAVRPACLLPGNRFGGYRFNAFRRAAAYYPKLNRSLVTAFPSPATAPAFADSIPGSKVPACYFAVSLTG |
| Ga0316043_128014 | Ga0316043_1280141 | F018868 | MRSKTSHAAKSGVGEHKARESESAQPCAVGKECVASTHPQKANA |
| Ga0316043_128081 | Ga0316043_1280811 | F029355 | PDSQPCSPRACNRTEHCVSKRRAPCLSAPRQPVWRSPLQRFQARRSLSPKLNRSLVTAFPSPATAPAFADSIPGSKVPACYFAVSLAGFNARSAIRLHCRNWFAPIPAASTPQARCTSARKLIRPLSPSPLPSGIFRSLGIKAFNGRCCRPVRLPNPPDLRSLPAAASITRLAADHRLRSATFPEARCSSN |
| Ga0316043_128200 | Ga0316043_1282001 | F003812 | VNLKTILTYAAIAFGVWWVIQQPTNADHIVHNIGTFLTTAANGLSRFVASI |
| Ga0316043_129363 | Ga0316043_1293631 | F102319 | MIPGPITSWSKNLLKYKTKPKLMDAAAANQTNLMKEEKDGPSR |
| Ga0316043_129730 | Ga0316043_1297301 | F003497 | DPLNSPLPDRHARPKHGSQRIGDIALLLPVTAFIRLRISAPELIRHFYLLEAFVSERPFARPQRLFSFENHRSEVKAPDLSLRQNSELFFQPVRPFAPTLDGVHHASGDVRCTRPVAVSRAQNSQTSIQPSLPVRTFIPPDRSAQSAAGSEKLTLVRGPFFLRSPKASITF |
| Ga0316043_129944 | Ga0316043_1299442 | F065397 | LVQVGVCVSRFFSPDKLTLVMTIPKTMATTDMRWMEIAPPRRVCMGRRRPLEKTLRPIAEERSLSDGELIDGLCPTFPAVMCFKLEGDNESYVSADC |
| Ga0316043_130356 | Ga0316043_1303562 | F097372 | VCLLQFSTIVMSSESIAHTIRNILEQCNSTTISIGHTEGHFLSSKQFAVLEECADTLESLESVAGIDTPSSSAITQASTEEDGVRSRRLQLAREIKQKQIQLAVASPGNRSQINLGIGKLLSERAKLDKLIKQFDTATIV |
| Ga0316043_130451 | Ga0316043_1304511 | F036818 | CDMKNILLSSVAGAGLLVFSLGAVAQDRDQDAYHSDRDAYFHDQHWRGHLFERVREDVQHVQAATWPGGGDQYRLGSTIDQLNVLQDKLANHVYDERDLDAVIGTLSRVVTDNRMAPRDRDILTDDLSRLRDYRANHADWDR |
| Ga0316043_132351 | Ga0316043_1323511 | F059586 | LCPSMKFTIAIASLLASVVSAASLQARQYNDGQLLSPAAGATVASGSQVTIQYHVYDSLSAGTKYILVGFEISPDDGDHTTYPVGNLSLSSPGSSGLVINSPVTAPSPGSYNLVIYDVRTAGVAQTLYSQMTVNQTITVT |
| Ga0316043_132495 | Ga0316043_1324951 | F001380 | DGSDDRQSLAIATFQPATGHSDQRALNELNILPEPETRYGLSLAHNDAYATIARSMFLACTFVSPSKTFTNPFDPLLFRSVRFRGRTGATSTPGTRFPLHSSTLRILPRSPLPFRPSFENPLDQSVRPVPNPEARLTRRPIVPCSPLLPLSIPLRISARNSLRLSLTYRS |
| Ga0316043_132535 | Ga0316043_1325351 | F068527 | NLDDQVVQPAVASLGYPSGEPAAFAAAPSSGCADALLSACAYSPAPRLDRRPTSPARIGVFSPGSTGGKHPAFTVCYALPADWLPTSQLALVSSLQLGLRLLPTHIWRRPSARLARTTSGFRRLLLQLPACAFCRCNLQACARLLPPFAKPVVILRLASAVSPSGFTGF |
| Ga0316043_132899 | Ga0316043_1328991 | F079670 | VKRTLKKGLKVLEMVKRERNKIITIDNSLKLRTILYFFLKKNIKLF |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |