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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 | 3300023686 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0128948 | Gp0290738 | Ga0247520 |
| Sample Name | Metatranscriptome of spruce roots microbial communities from Bohemian Forest, Czech Republic - CRU4 (Metagenome Metatranscriptome) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 27676327 |
| Sequencing Scaffolds | 20 |
| Novel Protein Genes | 21 |
| Associated Families | 21 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| Not Available | 19 |
| All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Acrogymnospermae → Pinopsida → Pinidae → Conifers I → Pinales → Pinaceae → Picea → Picea sitchensis | 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) | 49.0427 | Long. (o) | 13.6161 | Alt. (m) | N/A | Depth (m) | N/A | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F003050 | Metagenome / Metatranscriptome | 510 | Y |
| F004473 | Metagenome / Metatranscriptome | 436 | Y |
| F009017 | Metagenome / Metatranscriptome | 324 | Y |
| F009606 | Metagenome / Metatranscriptome | 315 | Y |
| F010404 | Metagenome / Metatranscriptome | 304 | Y |
| F018933 | Metagenome / Metatranscriptome | 232 | N |
| F021676 | Metagenome / Metatranscriptome | 218 | Y |
| F024792 | Metagenome / Metatranscriptome | 204 | Y |
| F025423 | Metagenome / Metatranscriptome | 201 | Y |
| F028515 | Metagenome / Metatranscriptome | 191 | Y |
| F029356 | Metagenome / Metatranscriptome | 188 | Y |
| F044777 | Metagenome / Metatranscriptome | 154 | Y |
| F059538 | Metagenome / Metatranscriptome | 133 | N |
| F060406 | Metagenome / Metatranscriptome | 133 | N |
| F062493 | Metagenome / Metatranscriptome | 130 | Y |
| F065397 | Metagenome / Metatranscriptome | 127 | Y |
| F068321 | Metagenome / Metatranscriptome | 124 | N |
| F081918 | Metagenome / Metatranscriptome | 114 | Y |
| F089618 | Metagenome / Metatranscriptome | 108 | N |
| F091140 | Metagenome / Metatranscriptome | 107 | Y |
| F097372 | Metagenome / Metatranscriptome | 104 | N |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0247520_106122 | Not Available | 1175 | Open in IMG/M |
| Ga0247520_109471 | Not Available | 875 | Open in IMG/M |
| Ga0247520_109967 | Not Available | 843 | Open in IMG/M |
| Ga0247520_110516 | Not Available | 811 | Open in IMG/M |
| Ga0247520_110618 | Not Available | 804 | Open in IMG/M |
| Ga0247520_110619 | Not Available | 804 | Open in IMG/M |
| Ga0247520_110663 | Not Available | 802 | Open in IMG/M |
| Ga0247520_112421 | All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Acrogymnospermae → Pinopsida → Pinidae → Conifers I → Pinales → Pinaceae → Picea → Picea sitchensis | 714 | Open in IMG/M |
| Ga0247520_114922 | Not Available | 614 | Open in IMG/M |
| Ga0247520_115590 | Not Available | 592 | Open in IMG/M |
| Ga0247520_115898 | Not Available | 583 | Open in IMG/M |
| Ga0247520_115977 | Not Available | 581 | Open in IMG/M |
| Ga0247520_116280 | Not Available | 573 | Open in IMG/M |
| Ga0247520_116305 | Not Available | 572 | Open in IMG/M |
| Ga0247520_116392 | Not Available | 570 | Open in IMG/M |
| Ga0247520_117144 | Not Available | 550 | Open in IMG/M |
| Ga0247520_117863 | Not Available | 532 | Open in IMG/M |
| Ga0247520_118203 | Not Available | 524 | Open in IMG/M |
| Ga0247520_118276 | Not Available | 522 | Open in IMG/M |
| Ga0247520_118957 | Not Available | 507 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0247520_106122 | Ga0247520_1061222 | F097372 | MSSESIAHTIRNILEQCNSTTISIGHTEGHFLSSKQFAVLEECADTLESLESVAGIDTPSSSAITQASTEEDGVRSRRLQLAREIKQKQIQLTAASPTNRSQINLDIGKLLSERAKLDKLIKQFDTATIV |
| Ga0247520_109471 | Ga0247520_1094711 | F009606 | VIKQTKYIMSSAKNTGNNEAGRGANVVRTKAKPKVNPVTGGNFEYVSEPRIGDSYVVVVAGPGGVQSFTFHHPIGLTDVDSEDWVCTPTADIQSLLARKEDPDERDRKSKRDRYRLELAVQAKLLEKRDSDGLLVYPNSGTNRQDALAAARTAAKDAVKAEKGKPSPDLYIRFLEQNVQGPESKVRKFLADPETIKRAETKFPSSGYRTRSGPLADRDQVEVEYLIGLSRPQAMDATTKRIFGLGGDDE |
| Ga0247520_109967 | Ga0247520_1099671 | F028515 | VERGAIRAKRRTPSVEHGVIRDRRDRKVRGPATRDVFGRK |
| Ga0247520_110516 | Ga0247520_1105162 | F018933 | SRVAGLSLCCLRRSRITPRSTLDSLYRPRIAPRSVLIDRCCPPIARRSTLNARRRSQIAPRSTLCARAGHGLLHVQHLESSPRVQIAPYSTLCAPRRSQIAPRSTLPARYRSRIAPLSAIDAPCRSTDISVRLHFAPCAVHGLLRAQHVKLRTAHRLLCVRRLHFVQITDCSAFLTPCLVLLADCSVLNT |
| Ga0247520_110618 | Ga0247520_1106181 | F059538 | LVNSVVQPLLRPSATPAARLQLSLPLLPLAAPVSNLRLASAALLPARPRANPPARIGVVSPGSVGGKCSAFAVNYALPIDWLLTFQLALASCLQLGLRLLPTHIWRCPSARQVSHLPVLTGFCCNN |
| Ga0247520_110619 | Ga0247520_1106191 | F089618 | GPVVQPVLRPSATPAANLQLSLPLLPLAAPVSNLRLASAALPPARPRANPPARIGVFSPGSTGGKHPARTVCYALPIDWLLTFQLALASGLQLGLRLLPTHIWCRPSARQVLRLPVLTGFRRNHRLAPVAAAAPTRAGCCPLLPHRPRTSDSHRLLFRRLCRSQLTQLALCAPTSGWAFDAPLASTEPCIAS |
| Ga0247520_110663 | Ga0247520_1106631 | F021676 | MPDGPATRPKTPLAVENGVGKPAAPARGAPNAGSGKREWRT |
| Ga0247520_112421 | Ga0247520_1124212 | F065397 | VQVRVFVSRLFSPDNLTLVMAIPKTTVTTDMRWMEIAPPRRVCGGRRRPFEKTLRPIAEERSVSNGELMEGLRPSFPAVSGFKAKDDNERFSSAQC |
| Ga0247520_114922 | Ga0247520_1149221 | F060406 | LGELNSTTGCRVLRLPQRPTSRFRLRSRPLAALALNLRLASPASHSSSTGGRLRRLGSTFCRSARTVANLRLSPALRASVRPLADLPTFVGVLPQARPRTNFRFAPDFDPSTRLVSNFRFAPVVVATSACAFCCCGRWLAPVPPVCQTSGELPTRIGCSSSGFTGFDSLGLRLVLLPPAGLLMHP |
| Ga0247520_115590 | Ga0247520_1155901 | F009017 | AVPSDPISSLAHHGHATVLSIAFRIAVRFACLLPGNRFSGYRFNAFRRAAAFYPKLDRSLVTAFSSPATASAFTDSIPRSMVLACYFAVSPAGFRARSVFPLHRRNWFAPIPAASTLQTRCTSTRKLIRPLSPSPLPFGSFTSLWIKAFNGRCCRPVRLPNPPDFRSLPATVLFLEEGHGSSFAIRYVFGGLLFLKP |
| Ga0247520_115898 | Ga0247520_1158981 | F024792 | WLNPSKTGPKGRVTGGRIHQSLWRRSHAVSDAKQELSGKGRIEAVPSRVK |
| Ga0247520_115977 | Ga0247520_1159771 | F081918 | FNYFIMDSRTEDLTDLNSIPKPCPYLRIIYIVLFNGVVERWVYLRFILFKNNY |
| Ga0247520_116280 | Ga0247520_1162801 | F062493 | VCRKALIPGQRNRPRGSGTAKHPELLNAVFYAEHAGREQGWELDY |
| Ga0247520_116305 | Ga0247520_1163051 | F010404 | MQPFTLLQRRFALRQIPAAGSTLLAYIFAAALEFQLARSASRSRPRLAFFRLTGLDHCESPVADFLS |
| Ga0247520_116392 | Ga0247520_1163921 | F025423 | PISSLAHHGHATVLSIAFRSAVRIVCLLPGSRFGGYRFNAFRRAAAYLSETEPFARNGFSLARNGSRFHGLHSGVNGPGLPLRYLACRFLRPFGLSAPLPELVCPNSRRFLASDPLHFRQQTHPAALPISTPLREFWLPRDQSVQWALLPSGPPSESARFPLAPRSLFYC |
| Ga0247520_117144 | Ga0247520_1171441 | F044777 | VVPSDPIPSPVLRRHARHRTLHWKVLCDPPFRSPEFDFSPPGSMLPSSPQSFFPTEPISRNGLSLARNGCSFSEASIPGSMVPACHFKTSRLDLPPGPPSAPLPSLVCPSRGQFHRLSPLRFPRSGSPGCFLHLHSPLGELPPSGSKRSTDSAALRLTFRIRPISLRSPPPFYC |
| Ga0247520_117863 | Ga0247520_1178631 | F068321 | MLTSVSERLHSIHWFRTDSLGNLLPTWARLGPLSVNEQGAALSHRRFDRGSFRCDRAPNGVAWRFPDWTAVGFAFPSPFLGSRSLWMSVTRILVTCWARFDHDRGSLSPRLGEPLAAILTRIASGVFVADDFRVALSLAADSRRARYPLLRTDFAWKAGLRIRSLFLFRRSLP |
| Ga0247520_118203 | Ga0247520_1182031 | F029356 | MTTLILNPRGKDGGRPPARVAGRGEVKTRKLGRLPGESPGTDVRKISAEAKAVRLLERSL |
| Ga0247520_118276 | Ga0247520_1182761 | F091140 | VALSLSEPLTARSDGGCYPPSHPEESGLSSVAKPWTQPAGPVSRHRSSSQGATAII |
| Ga0247520_118957 | Ga0247520_1189571 | F004473 | LIRRVEKPKGEWRSDDIARAPEIGADNGSKVTNSPGFGFETEPSGGAFGRTGARRNTGVEAKAQVGSVDLVMVAKASLRASERPFRVSGSGRMHVY |
| Ga0247520_119196 | Ga0247520_1191961 | F003050 | MESVKAGAVAGEEKAVTSGRFSFGMISCGAPESVEAVTAKPVAGEQTGKA |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |