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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 | 3300023559 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0128948 | Gp0290747 | Ga0247529 |
| Sample Name | Metatranscriptome of spruce roots microbial communities from Bohemian Forest, Czech Republic - CRA3 (Metagenome Metatranscriptome) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 30343171 |
| Sequencing Scaffolds | 21 |
| Novel Protein Genes | 22 |
| Associated Families | 21 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Amabiliviricetes → Wolframvirales → Narnaviridae → Narnavirus → unclassified Narnavirus → Plasmopara viticola lesion associated narnavirus 22 | 1 |
| Not Available | 17 |
| All Organisms → Viruses → Predicted Viral | 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 → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae → Acidobacterium → Acidobacterium capsulatum | 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? |
|---|---|---|---|
| F003497 | Metagenome / Metatranscriptome | 483 | Y |
| F007311 | Metagenome / Metatranscriptome | 353 | Y |
| F009688 | Metagenome / Metatranscriptome | 314 | Y |
| F011845 | Metagenome / Metatranscriptome | 286 | Y |
| F012024 | Metagenome / Metatranscriptome | 284 | Y |
| F012750 | Metagenome / Metatranscriptome | 277 | Y |
| F018933 | Metagenome / Metatranscriptome | 232 | N |
| F023797 | Metagenome / Metatranscriptome | 208 | Y |
| F024793 | Metagenome / Metatranscriptome | 204 | Y |
| F025423 | Metagenome / Metatranscriptome | 201 | Y |
| F028056 | Metagenome / Metatranscriptome | 192 | Y |
| F030305 | Metagenome / Metatranscriptome | 185 | N |
| F030619 | Metagenome / Metatranscriptome | 184 | Y |
| F050832 | Metagenome / Metatranscriptome | 144 | Y |
| F060406 | Metagenome / Metatranscriptome | 133 | N |
| F061338 | Metagenome / Metatranscriptome | 132 | Y |
| F065416 | Metagenome / Metatranscriptome | 127 | Y |
| F078064 | Metagenome / Metatranscriptome | 116 | N |
| F089697 | Metagenome / Metatranscriptome | 108 | N |
| F097372 | Metagenome / Metatranscriptome | 104 | N |
| F102319 | Metagenome / Metatranscriptome | 101 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0247529_101973 | All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Amabiliviricetes → Wolframvirales → Narnaviridae → Narnavirus → unclassified Narnavirus → Plasmopara viticola lesion associated narnavirus 22 | 1914 | Open in IMG/M |
| Ga0247529_104520 | Not Available | 1373 | Open in IMG/M |
| Ga0247529_107723 | All Organisms → Viruses → Predicted Viral | 1019 | Open in IMG/M |
| Ga0247529_108183 | Not Available | 984 | Open in IMG/M |
| Ga0247529_109539 | Not Available | 887 | Open in IMG/M |
| Ga0247529_110052 | Not Available | 856 | Open in IMG/M |
| Ga0247529_110920 | Not Available | 810 | Open in IMG/M |
| Ga0247529_110999 | Not Available | 806 | Open in IMG/M |
| Ga0247529_111016 | All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Acrogymnospermae → Pinopsida → Pinidae → Conifers I → Pinales → Pinaceae → Picea → Picea sitchensis | 805 | Open in IMG/M |
| Ga0247529_112478 | Not Available | 735 | Open in IMG/M |
| Ga0247529_112903 | Not Available | 716 | Open in IMG/M |
| Ga0247529_114485 | Not Available | 657 | Open in IMG/M |
| Ga0247529_115246 | All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae → Acidobacterium → Acidobacterium capsulatum | 633 | Open in IMG/M |
| Ga0247529_117309 | Not Available | 577 | Open in IMG/M |
| Ga0247529_117450 | Not Available | 573 | Open in IMG/M |
| Ga0247529_117572 | Not Available | 570 | Open in IMG/M |
| Ga0247529_117739 | Not Available | 566 | Open in IMG/M |
| Ga0247529_118026 | Not Available | 560 | Open in IMG/M |
| Ga0247529_118029 | Not Available | 560 | Open in IMG/M |
| Ga0247529_118421 | Not Available | 551 | Open in IMG/M |
| Ga0247529_120166 | Not Available | 516 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0247529_101973 | Ga0247529_1019731 | F030619 | SALHSKRWKNVPCNIRKNVVDTLCHLAVRQPENGFAFTRLSRSLPEPPQRECVRHLQAAKLMASAEFPTSVAALDSLRSFVALTPGVSGNGVLRHPRRLPSSSSSCLEWPATRGGIDGYLEHLGHMCEEAGATQSSFHAYAGDSLGAFCLRKASVVLRPCAGVAADLRESYRCAGLLYLRSQGKPFGMKATALRTPGYKVRVVGVPDCLTFVEGSWVRSSLRWLAPGHWRIDGESRKIPGGLHYRAGRRFASLDLSKATDGLSHPAVRVVIEGLASRGLIRLTDLAMSMRSLGLERGATWSFPDLGDKIGEGSFLRGSPMGTPLSFVVLSWVNAWATSTFSRALTHGDDAVGRYTPGSLELDLYASRVASVGAALNREKTFKADHTWTACEIFALPRSHGEDKMTLFYPPSIPPPALRAPVEADQRLENLWLRRMERIMKSRFPWIVKDPRLHLPVQVGGLGYTGRGLAVGVSVRRRLGALVSRGPSAVIAADLIGKKPFREVGLYPRPLCRVVRPGSYWKAVRATEQWFQAGGDTHVPLESLLSFKSCLIEDEVRLLEGDKFKRKRVAGRPDRTRAGAVFRRLGVAPCRPLTRRWGCSALIRWASLSRESEVTVPEDIASEIRERIPDPT |
| Ga0247529_104520 | Ga0247529_1045202 | F097372 | MSDESIAHTIRNILKQCNSTVISIGHTEGHFLSSKQFAVLEECAGTLENLESVAGVDTPATSAITQASSEEDGFRARRLELARELKQKQIRLTAAPPGDRSQINLEIGKLLSERARLDKLIKQFDATTIA |
| Ga0247529_107723 | Ga0247529_1077231 | F007311 | SFVPSCWPPHFAVAPVTDYSMLDALRSPLRSDCSALRFLRPVPASDLTRRPTLSTPRLVQIAPHSTLCARAVHGSPRATDCSVVQHLELCPACGSLRPRWLTFHDALGLLLAHRFPPYGVPGLLRDRRVTLHAGLRIAPYSDALRPWPVHGFLRARS |
| Ga0247529_108183 | Ga0247529_1081831 | F102319 | MIPGPITSWSKNLFLYKTKPMVMGAATANKIKLMEEQKDGPFRAMLRSIL |
| Ga0247529_109539 | Ga0247529_1095391 | F030305 | PLQFIGSCIVPFGFLVPVPSFLFPALSDLARRCGSGRPVPRVSDRTGDEASSCPDSSVFSAVPADGSSSRPDSRILQLGYPQIARLPRLSTSCLAVDERPGCPDRSIIWLYRRRRSRVAPNLTSFGGTVSNSPSRPGSSLLQPLPLMVLRVAPGAPSSGFAGGDSSGCPEALIPRLCRLVALRVSPNLPPSDICRFRSSGLPQIGFLGGSMMNPRFARTLHPRSIQLTSLQVAPKLPLPAAPRMNLQTHSGFAFLPTLRCSLNLYPLFACRRTGLLRTTINQFPIACRAGLQSVS |
| Ga0247529_110052 | Ga0247529_1100521 | F089697 | SILITRSTVGAASSGYPSGRPPAFAGAATSGCAGFQNSDLRRRPALQLDRWPTFRLGSASCPSARPAANFRLASNVPLFRSSFGDPSGLRLTILVSSGLRPTILVPSGLRRMALPPARPTTYLRFASMPSFDSAGGFIRLAPYAAPAPRLAPLPVCTGCFTLRLDRP |
| Ga0247529_110920 | Ga0247529_1109201 | F024793 | VNSASPELSLWFQRSRINQPDPAFPRSPGIIHKLDNFNFTLNRPLG |
| Ga0247529_110999 | Ga0247529_1109991 | F018933 | SRVAGLSLCCLRRSRITPRSTLDSLYRPRIAPRSVLIDRCCPPIARRSTLNAPRRSQIAPRSTLCARAGHGLLRVQHLESSPRVQIAPYSTLCAPRRSQIAPRSTLPARYRSRIAPLSAIDAPCRSTDISVRLHFAPCAVHGLLRAQHFKLRTAHRLLCVQRLHFVQITDCSAFLTPCLVLLADCSVLNT |
| Ga0247529_111016 | Ga0247529_1110161 | F050832 | KSPLRCKPRPVVMEVATADRTSLAEKKKDGPSRAMLKAIPLSVLHV |
| Ga0247529_112478 | Ga0247529_1124781 | F009688 | TPFSTASGVFGLVAGPSNALRPWILSEAFQLASAGGCATGLPTRSRHACDFFVRVLTTGPGSATAFGGAFARNHGSRLFTLKLPLFHSPAVSFLISPALGSFSRGLPSRRLLPDTSTLFVCLSAFLIWRIQLFIFEPPESPTPC |
| Ga0247529_112903 | Ga0247529_1129031 | F023797 | MLGKPLMLSPFSIRRFGAARVDTIPLLDRTSHRPAVRRMSLPMSLESSLPRLAPQAIFRSLSNLSSSC |
| Ga0247529_114485 | Ga0247529_1144851 | F060406 | LGELNSTTGCRVLRLPQRPTSRFRLRSRPLAALAPNLRLASPASHSSSTGGRLRRLGSTFCRSARTVANLRLSPALRASVRPLADLPTFVGVLPQARPRTNFRFAPDFDPSTRLVSNFRFAPVVVATSACAFCCCGLWLAPVPPVCQTGGELPTRIGCSASGFTGLDSLGLRLVSLPPAGLLMHP |
| Ga0247529_114485 | Ga0247529_1144852 | F078064 | SKVVKLAGSEDARTGGYGILIDGLPAMQGSVEVRGASKAQPEVETQGASRVNRDR |
| Ga0247529_115246 | Ga0247529_1152461 | F061338 | MTSVALTILYAAEPILLAVALIALLRSREQKRFPALFGYVALRLGSSVVLHLLLQIHRFVTIDNAAAYALYFYTYWVSYVASAVVVFLVIQEMFQFA |
| Ga0247529_117309 | Ga0247529_1173091 | F050832 | CKAKPVVMEAGTADRTKLAEKKKDGPSRAMLKSLLLSLLHV |
| Ga0247529_117450 | Ga0247529_1174501 | F012024 | MHGTEHRVSERRALRLLAPRKPFYPASASKLPDAPQPLCLSKTGPFARDGLSLARMISACADSIPESKILACHFAHSLASLSARSAFWLRRQPLVCPSFRLHPRLKPVAFFTGLLCRLCRLLPLPFRSFRSLGIKASTGFATVRSTFRNRPIFVRSPQPFH |
| Ga0247529_117572 | Ga0247529_1175721 | F025423 | PISSLAHHGHASVLSTAFRSAVRLACLLPGNRFGGYRFNAFRRAAAYLSETGPLTRNGLSLARNGCRFRGLHSGVKGPGLLLRYLDRRLPCPFGLSAPLPELVCPNSRRFLASDPLHFRRQTHPTALPISTPLREFWLPRDQSVQWASLPSGPPSESARFPLAPRSPFYC |
| Ga0247529_117739 | Ga0247529_1177391 | F011845 | PGFTVRFSDPSACGRSLCNKMLRINSSSLSATAFQHATGQCNQHIFRRTQHPAGAGISIRPFARSQRRFRHHCEVNVPGLHLRFHIEDFHEPVRSLALPLRSVSRPNRGDVNARNPFSAPAFNTPNSSPISTPLQAFFRKPSGSKRSTGSITRSSPRETSDCLLLPAALSFDHAADQRLKPASSRLAI |
| Ga0247529_118026 | Ga0247529_1180261 | F028056 | FTARLSEPPACSAFDPQPDTPDSTLAARRRRFSARAGSVPRTFPQRTCIRPEPETRNGLSLARNDAFATITRSTFLACPFDSTYKLCADPFHRKLSARFGFEAETGRIHHLQPVIHAPLMRSHDATPSPLPFGLFLPSGSKRSTGFITGSSPYRTPDLPFTPRCAFFRLRFGSVLKTPLRPVWLSF |
| Ga0247529_118029 | Ga0247529_1180291 | F003497 | PSDPSNSPLPDRHARSKHGSQRIGDVALLLPVTAFIRLRISAPEPIRHFYLLEAFVSGRPFARPQRLFSFENHRGEVKAPDLSLRQNSELFFQPVRPFAPTLGGVHHASGDVRRIKPVAVSRAQNSQTSIQPSLPVRTFIPPDRSAQSAAGSEKLTLVRGPFFLRSPKASITF |
| Ga0247529_118421 | Ga0247529_1184211 | F012750 | MEASEREQPLRARERPLRGTGSIEERDCGVPGGIDPEAEKSALGERNGETLSATQCDALCRACRWRARLG |
| Ga0247529_120166 | Ga0247529_1201661 | F065416 | VVCSFSILLCMSPMRSGYKELGLDLVEPLQDQPCKPRRPPMGEEKKDEGAGDPIKMLLE |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |