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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 | 3300028588 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0134331 | Gp0306410 | Ga0265780 |
| Sample Name | Plant litter microbial communities from East Loma Ridge, Irvine, California - P1 T30 |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 2735859264 |
| Sequencing Scaffolds | 25 |
| Novel Protein Genes | 36 |
| Associated Families | 15 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Oligohymenophorea | 11 |
| All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Oligohymenophorea → Hymenostomatida | 1 |
| Not Available | 7 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rickettsiales → unclassified Rickettsiales → Rickettsiales bacterium | 2 |
| All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → sordariomyceta → Leotiomycetes → Helotiales → Sclerotiniaceae | 1 |
| All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → dothideomyceta → Dothideomycetes → Pleosporomycetidae → Pleosporales → Pleosporineae → Pleosporaceae → Alternaria → Alternaria sect. Alternaria | 1 |
| All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Spirotrichea | 1 |
| All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata | 1 |
| Ecosystem Assignment (GOLD) | |
|---|---|
| Name | Plant Litter Microbial Communities From East Loma Ridge, Irvine, California |
| Type | Environmental |
| Taxonomy | Environmental → Terrestrial → Plant Litter → Unclassified → Unclassified → Plant Litter → Plant Litter Microbial Communities From East Loma Ridge, Irvine, California |
| Alternative Ecosystem Assignments | |
|---|---|
| Environment Ontology (ENVO) | grassland biome → litter layer → plant litter |
| Earth Microbiome Project Ontology (EMPO) | Free-living → Non-saline → Soil (non-saline) |
| Location Information | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location | USA: California | |||||||
| Coordinates | Lat. (o) | 33.7416 | Long. (o) | -117.7042 | Alt. (m) | N/A | Depth (m) | 0 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F002654 | Metagenome / Metatranscriptome | 539 | Y |
| F003009 | Metagenome / Metatranscriptome | 513 | Y |
| F003289 | Metagenome / Metatranscriptome | 495 | Y |
| F004023 | Metagenome / Metatranscriptome | 456 | Y |
| F009305 | Metagenome / Metatranscriptome | 319 | Y |
| F018020 | Metagenome / Metatranscriptome | 237 | Y |
| F021064 | Metagenome / Metatranscriptome | 220 | Y |
| F021791 | Metagenome / Metatranscriptome | 217 | Y |
| F030315 | Metagenome / Metatranscriptome | 185 | Y |
| F039653 | Metagenome / Metatranscriptome | 163 | Y |
| F056350 | Metagenome / Metatranscriptome | 137 | Y |
| F075510 | Metagenome / Metatranscriptome | 118 | N |
| F081964 | Metagenome | 113 | Y |
| F088701 | Metagenome / Metatranscriptome | 109 | N |
| F102612 | Metagenome / Metatranscriptome | 101 | N |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0265780_10002844 | All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Oligohymenophorea | 23200 | Open in IMG/M |
| Ga0265780_10003458 | All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Oligohymenophorea | 20743 | Open in IMG/M |
| Ga0265780_10045570 | All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Oligohymenophorea | 4678 | Open in IMG/M |
| Ga0265780_10075694 | All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Oligohymenophorea | 3447 | Open in IMG/M |
| Ga0265780_10120570 | All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Oligohymenophorea → Hymenostomatida | 2592 | Open in IMG/M |
| Ga0265780_10134156 | Not Available | 2425 | Open in IMG/M |
| Ga0265780_10161557 | All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Oligohymenophorea | 2158 | Open in IMG/M |
| Ga0265780_10193884 | All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Oligohymenophorea | 1921 | Open in IMG/M |
| Ga0265780_10208314 | All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Oligohymenophorea | 1835 | Open in IMG/M |
| Ga0265780_10234988 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rickettsiales → unclassified Rickettsiales → Rickettsiales bacterium | 1698 | Open in IMG/M |
| Ga0265780_10251762 | All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Oligohymenophorea | 1623 | Open in IMG/M |
| Ga0265780_10264242 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rickettsiales → unclassified Rickettsiales → Rickettsiales bacterium | 1573 | Open in IMG/M |
| Ga0265780_10284142 | All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → sordariomyceta → Leotiomycetes → Helotiales → Sclerotiniaceae | 1499 | Open in IMG/M |
| Ga0265780_10284923 | Not Available | 1496 | Open in IMG/M |
| Ga0265780_10399426 | Not Available | 1194 | Open in IMG/M |
| Ga0265780_10399463 | All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Oligohymenophorea | 1194 | Open in IMG/M |
| Ga0265780_10511472 | All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Oligohymenophorea | 1010 | Open in IMG/M |
| Ga0265780_10584483 | Not Available | 921 | Open in IMG/M |
| Ga0265780_10677625 | Not Available | 831 | Open in IMG/M |
| Ga0265780_10685257 | All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → dothideomyceta → Dothideomycetes → Pleosporomycetidae → Pleosporales → Pleosporineae → Pleosporaceae → Alternaria → Alternaria sect. Alternaria | 825 | Open in IMG/M |
| Ga0265780_10696734 | Not Available | 815 | Open in IMG/M |
| Ga0265780_10817076 | All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Spirotrichea | 728 | Open in IMG/M |
| Ga0265780_10837098 | Not Available | 715 | Open in IMG/M |
| Ga0265780_11080145 | All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Oligohymenophorea | 596 | Open in IMG/M |
| Ga0265780_11119669 | All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata | 580 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0265780_10002844 | Ga0265780_1000284414 | F030315 | VIKYNEFIIIIKYEDILLIKNDIETLKYNYRIGLDTLLVYTIKYEY |
| Ga0265780_10003458 | Ga0265780_1000345812 | F030315 | MKYIEFISIINYEDILLLKNDIEVLKYNYRIGLDTLLVYTIKYEYIINLLELTF |
| Ga0265780_10034316 | Ga0265780_100343163 | F081964 | MTTATCYRQQIVRAVTGWAPAITWNVTNSGLLDRICARLVEAERAAEILQAKGYGKPGLLLHEVAALVPPAP |
| Ga0265780_10045570 | Ga0265780_100455701 | F009305 | YDGLEPEMSXXDEALGNELGSFIEALVILNIICWWMYPEPEALSYEIFMXGDIGMVSDVRFYGVAPHXYFRPYMAXLIVCPHHKTGIFGLALFFFALFHQPTLHGFNENGSYYKRRLLFSANKLKQKTFYKQSNLNVELNLFFQTTYALFVMCALYTSSFLPYGRFYNRLGGNIGMLGAYLYVLLYVSITSLRRPYXLELYFYFIFNKSNFLRKLKISLPERRYNQIVN |
| Ga0265780_10058983 | Ga0265780_100589833 | F081964 | MTTATCYRQQIVRAVTGWAPAITWSVTNSDSLDRICSRLVDAERAFEILQAKGYGKPGLLLHEVAALVPTKHL |
| Ga0265780_10064311 | Ga0265780_100643114 | F081964 | VSQPVVSYRHAIIRAVTGGRPAMVFHVVDETALRNICERLAESERAFEILRAKGYGRPGLLLQEVAALVPENQ |
| Ga0265780_10071762 | Ga0265780_100717624 | F081964 | MRRVAFFIQGTQVSQPVDCFRHAIIRAVTGGHPALVFHVVDETALRLICERLAEAERAFEILRAKGHGRPGLLLHEVAALVPDLK |
| Ga0265780_10075650 | Ga0265780_100756502 | F081964 | MSMAKLHYRHLIVRAVTGNRPALVFHVTDGAAIDRICERLVEAEKAAEILQALGYGKPGLLLHEVAALVPPAA |
| Ga0265780_10075694 | Ga0265780_100756947 | F056350 | MAWYQRNYFNLSIGNLIKYFSVLTVAFHDVHSLFGFFILLVVFSQLISGTMVSFSLVPEPMMIPVVRDEEDLEDLYTDDFFXVHERGVDLLFIFSWMHLFRKMYISAFEYEHEIAXKSGVFTFMILQV |
| Ga0265780_10079933 | Ga0265780_100799335 | F081964 | VSQPVDCYRHAIIRAVTGNRPAIVFHVVDETALRHICERLAEAERAFEILRAKGHGKSGLLLHEVAALVPNAS |
| Ga0265780_10120570 | Ga0265780_101205701 | F003289 | MXGNIVTEVALQSNFGVGFNNMKSDVLIHLTQWQYXWXFXFSFLXAFYYLVILRVVRFRTLKFRPRLATTFRPHGKXGDLIICLIPISXCANIITNSNFILRMIEXQAETGLLTIRIRGKQXYXIYKFELKTFTDILTVPKNVGNNKXQISTPGDLQVADDYLHILQLRSQNKXVKKYXSDLSQKFARSKNFHLISPQ |
| Ga0265780_10134156 | Ga0265780_101341561 | F088701 | VAVVLKGPEKIPIPLFKNRKNKLSYAIKAEISKIVIVALEHNIDLSRLSVIELD |
| Ga0265780_10161557 | Ga0265780_101615571 | F075510 | EHEIAXKSGVFTFMILQVVTFFGLVLCCTHLSEITLTIAANIMHTFFLFHGKVYXWIFTDKNLNTDTLIRLAYGHYVSAFYMAYLGLLHGIDMHYDXKNEATYDGLEPEMSXWDEALSNELGTFIEALIVLNIICWWLYPEPEALSYEIFMXGDIGLISDVRFYGVAPHXYFRPFMAWLIVCPHHKTGIFGLIFLFFALFHQPTLHGVNENGFFYKRRLLFTINRIKQKNFYKQTHLNLEMNLFFQTTYALFIMSALYTNTFLPYGRFYNRLGGNIGMLGAYFYVFLYLGVTSLRRPYXLELYFYFIYNRTNFLKKNLVFLPKVNFYK |
| Ga0265780_10193884 | Ga0265780_101938842 | F075510 | LCCIHLSEITLTIAANVVHTLFLFHGKFYWXIFTDKNLNTDTLIRLAYAHYLSAFYMGYLGLLHGIDMHYDWKNESIYDGLEPEMSXXDEALSNELGTFIEAIFVLNIVCWXLYPEPEALSYEIFMXGDIGLIPDVRFYGVAPHWYFRPFMAWLIVCPHHKTGIFGLAYLFFALFHQPTLHGLNEHGLYYKRKLLFTVNRIKQRKFYKQSYLNLELNLFFQTTYTMFVMCALYTNTFLPYGRFYNRLGGNIGMLAAYFYVFLYLAITSLRRPYWLELYFYFIFNRLSFLKNIKEKNKYTKLTKFKKQVISLKLDQKX |
| Ga0265780_10208314 | Ga0265780_102083142 | F003289 | MXGNIVTEIALQSNFSIGFNNMKSDVLIHLTQXQYXWXFXFSFLWAFYYLVILRVIRFRTLKFRPRLATTLRPHGKXGDLIICIIPISXCSNIITNSNLIMRMIEXQAETGLLTIRIRGKQWYWIYKFELKTFTDILTIPKNIGRDKXQISTPGDLQIADDYLHILQLRSQNKWVKKYXNDLNQKFSKQKNFHIISPQE |
| Ga0265780_10231152 | Ga0265780_102311522 | F081964 | VSQPVDCYRHAIIRAVTGNRPAIVWNVTDGAALDRICERLAEAERAFEILRAKGHGRPGLLLHEVAALVPDACS |
| Ga0265780_10234988 | Ga0265780_102349882 | F075510 | EITLTIAANIMHTVFLFHGKFYXXIFTDKNLNTDTLIRLAYAHYLSAFYMAYLGLLHGIDMHYDXKNESTYDGLEPEMSXXDEALGNELGSFIEALVILNIICXWLYPEPEALSYEIFMXGDIGMVSDVRFYGVAPHXYFRPFMAXLIVCPHHKTGIFGLALFFFALFHQPTLHGFNENGAYYKKRLLFTINKLKQKTFYKQSNLNVELNLFFQTTYAFFVMSALYTSSFLPYGRFYNRLGGNVGMLGAYLYVLAYVSITSLRRPYXLELYFYFIFNKSSFLKRLKVNIPERKFNQIVN |
| Ga0265780_10251762 | Ga0265780_102517621 | F003009 | LAWYQRTYFNVNIGNLVKYFSILTVAFHDVHSLFGFFILLVVFSQLISGTMLSFSLVPESMMVPIVRDEEDLEDLYTDDFFWVHERGVDLLFIFS |
| Ga0265780_10264242 | Ga0265780_102642422 | F009305 | LHGIDMHYDXKNEATYDGLEPEMSXWDEALSNELGTFIEALIVLNIICXWLYPEPEALSYEIFMXGDIGLISDVRFYGVAPHXYFRPFMAXLIVCPHHKTGIFGLIFLFFALFHQPTLHGVNENGFFYKRRLLFTINRIKQKNFYKQTHLNLEMNLFFQTTYALFIMSALYTNTFLPYGRFYNRLGGNIGMLGAYFYVFLYLGITSLRRPYXLELYFYFIYNRTNFLKKNLVFLPKTNFY |
| Ga0265780_10284142 | Ga0265780_102841421 | F002654 | VCQKGNSPEQVFKVPKFLLSESKEVFKLYNQEIGLEAA |
| Ga0265780_10284923 | Ga0265780_102849231 | F088701 | KIPIPLFKNRKNKLSYAIKAEISKIVIVALEYKIDLSRLSVIELDKSKKINDVINT |
| Ga0265780_10295392 | Ga0265780_102953922 | F021064 | FATNIKKAALLKGLNCIPLDLLTSVIGNSNNIRIAANIAITPNNLLGIDLNIA |
| Ga0265780_10334534 | Ga0265780_103345342 | F081964 | MSMEKLHYRYLIVRAVTGGRPALVYNVIDGAALDRICERLVDDERTFEILRAKGYGKPGLLLHEVAALVPNKEIA |
| Ga0265780_10399426 | Ga0265780_103994261 | F021791 | LTILVRFYADYRIKPHVPPFKQIPANSVKFRPCDYTAQAEYLRVN |
| Ga0265780_10399463 | Ga0265780_103994632 | F030315 | VIKYSEFIVIINYEGILLIKSDIETLKYNYRIGLDTLVVYTIKYEYIN |
| Ga0265780_10511472 | Ga0265780_105114722 | F003289 | MXGNIVTEVSLQSNFGTGFNNMKSDVLIHLTQXQYXWWFXFSFLWAFYYLTVLRVLRFRTLKFRPRIATTFRPHGKXGDVLICIIPISWCANIISNSNLILRMIEWQAETGLLTIRIRGKQWYXIYKYELKAFTDILTVPKNVGRNKXQISTPGDLQVADDYLHILQLRSQNKXVKKYXNDLSQKYAKQKNFHLISPQE |
| Ga0265780_10584483 | Ga0265780_105844833 | F018020 | MTEKVHIIRSGYSSLIFEIKSVPIPAPVPPPREWVI |
| Ga0265780_10677625 | Ga0265780_106776251 | F030315 | MKYNEFIIIIKYEDILLTQNDVEALKYKYRIGLDTLLVYTIKYEY |
| Ga0265780_10685257 | Ga0265780_106852572 | F102612 | HTSLAGYITHTMSSPAQPSPQVLQAYHQRLETLYSSLPDLLTTEQEDKTGTEALEQDVGKLDVKEQNLEDRVNKYCQEFLYIGGPTPYKRDLTST |
| Ga0265780_10696734 | Ga0265780_106967341 | F003289 | MXGNIVTEVALQSNFGLGFNNMKSDVLIHLTQXQYXXXFXFSFLXAFYYLVILRVIRFRTLKFRPRLATTYRPHGKXGDLLICIIPISXCSNIITNSNLIMRMIEXQAETGLLTVRIRGKQXYXIYKFELKTFTDILTIPKNIGNNKXQISTPGDLQTADDYLHILQLRSQNKXVKKYXNDLNQKFGKQKNFHIISFQEQLNYNFYENYNNFLKISN |
| Ga0265780_10817076 | Ga0265780_108170761 | F039653 | EPTFIYAYPVLLIGMTDSVFKLFYQIDLKKLVAYSTVVEMH |
| Ga0265780_10837098 | Ga0265780_108370981 | F030315 | VIKYNEFIIIFKYEDILLIKNDVDTLKYKYRIGLDTLLVYTIKYEY |
| Ga0265780_10888432 | Ga0265780_108884321 | F081964 | VQTVPCFRHAIIRAVTGNRPAIVWKVIDEAALNRICERLAEAARAAEILQAKGYGLPGQLLHEVAAQVPAAHARDSR |
| Ga0265780_11080145 | Ga0265780_110801451 | F009305 | HYDXKNESSYDGLDVEMSXXDEALSNELGSFIELIFILNVICLXLYPEPEALSYEIFMXGDIGLISDVRFYGVAPHXYFRPYMAXLIVCPHHKTGIFGLLYLFLVLFHQPTLHGINEHNLYYKRRLLFSANKIKQKVFYKQSYLNVELNLFFQVTYTFFVMCGLYTFTFLPYGRFYNRLGGNVGMLFAYMYVFFYLGV |
| Ga0265780_11119669 | Ga0265780_111196691 | F004023 | YWXIFTDKNLNTDTLIRLAYAHYLSAFYMAYLGLLHGIDMHYDXKNEASYDGLEVEMSXXDEALSNELGSFIELIFILNIISXXLYPEPEALSYEIFMXGDIGMVSDVRFYGVAPHXYFRPYMAXLIVCPHHKTGIFGLLYLFVVLFHQPTLHGINEHNLYYKRRLLFSSNKIKQKVFYKQSNLNVELNLFF |
| Ga0265780_11246090 | Ga0265780_112460903 | F081964 | MSMAATHYRHLIVRAVTGNRPAMVYRVIDGAALDRICQRLVEDERAAEILQAKGYGKPGMLLH |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |