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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 | 3300028621 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0046785 | Gp0297569 | Ga0257142 |
| Sample Name | Metatranscriptome of saline water microbial communities from Sakinaw Lake, British Columbia, Canada - sak_2011_1_27_40m (Metagenome Metatranscriptome) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 161096968 |
| Sequencing Scaffolds | 29 |
| Novel Protein Genes | 31 |
| Associated Families | 25 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → candidate division WOR-3 → candidate division WOR-3 bacterium | 2 |
| Not Available | 17 |
| All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → candidate division WOR-3 → candidate division WOR-3 bacterium JGI_Cruoil_03_51_56 | 1 |
| All Organisms → cellular organisms → Archaea → TACK group | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Dehalococcoidia → unclassified Dehalococcoidia → Dehalococcoidia bacterium | 1 |
| All Organisms → cellular organisms → Eukaryota | 1 |
| All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium | 2 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Escherichia | 2 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria | 1 |
| Ecosystem Assignment (GOLD) | |
|---|---|
| Name | Marine Microbial Communities From Expanding Oxygen Minimum Zones In The Northeastern Subarctic Pacific Ocean |
| Type | Environmental |
| Taxonomy | Environmental → Aquatic → Marine → Oceanic → Unclassified → Marine → Marine Microbial Communities From Expanding Oxygen Minimum Zones In The Northeastern Subarctic Pacific Ocean |
| Alternative Ecosystem Assignments | |
|---|---|
| Environment Ontology (ENVO) | aquatic biome → lake → saline water |
| Earth Microbiome Project Ontology (EMPO) | Free-living → Saline → Water (saline) |
| Location Information | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location | Canada: British Columbia | |||||||
| Coordinates | Lat. (o) | 49.68 | Long. (o) | -124.009 | Alt. (m) | N/A | Depth (m) | 40 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000344 | Metagenome / Metatranscriptome | 1257 | Y |
| F000388 | Metagenome / Metatranscriptome | 1201 | Y |
| F004323 | Metagenome / Metatranscriptome | 443 | Y |
| F008512 | Metagenome / Metatranscriptome | 332 | Y |
| F013725 | Metagenome / Metatranscriptome | 269 | Y |
| F018558 | Metagenome / Metatranscriptome | 234 | Y |
| F018909 | Metagenome / Metatranscriptome | 232 | Y |
| F025295 | Metagenome / Metatranscriptome | 202 | Y |
| F030484 | Metagenome / Metatranscriptome | 185 | Y |
| F039953 | Metagenome / Metatranscriptome | 162 | Y |
| F044534 | Metagenome / Metatranscriptome | 154 | Y |
| F054975 | Metagenome / Metatranscriptome | 139 | N |
| F055311 | Metagenome / Metatranscriptome | 139 | Y |
| F065812 | Metagenome / Metatranscriptome | 127 | Y |
| F067889 | Metagenome / Metatranscriptome | 125 | Y |
| F076133 | Metagenome / Metatranscriptome | 118 | Y |
| F079305 | Metagenome / Metatranscriptome | 116 | Y |
| F088317 | Metagenome / Metatranscriptome | 109 | Y |
| F089118 | Metagenome / Metatranscriptome | 109 | Y |
| F093163 | Metagenome / Metatranscriptome | 106 | Y |
| F093176 | Metagenome / Metatranscriptome | 106 | Y |
| F094064 | Metagenome / Metatranscriptome | 106 | N |
| F098292 | Metagenome / Metatranscriptome | 104 | N |
| F098546 | Metagenome / Metatranscriptome | 103 | Y |
| F105212 | Metagenome / Metatranscriptome | 100 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0257142_1006897 | All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → candidate division WOR-3 → candidate division WOR-3 bacterium | 2247 | Open in IMG/M |
| Ga0257142_1009936 | Not Available | 1865 | Open in IMG/M |
| Ga0257142_1012110 | All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → candidate division WOR-3 → candidate division WOR-3 bacterium JGI_Cruoil_03_51_56 | 1674 | Open in IMG/M |
| Ga0257142_1019613 | Not Available | 1293 | Open in IMG/M |
| Ga0257142_1022172 | All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → candidate division WOR-3 → candidate division WOR-3 bacterium | 1205 | Open in IMG/M |
| Ga0257142_1027721 | Not Available | 1061 | Open in IMG/M |
| Ga0257142_1038401 | Not Available | 878 | Open in IMG/M |
| Ga0257142_1040153 | Not Available | 856 | Open in IMG/M |
| Ga0257142_1041322 | All Organisms → cellular organisms → Archaea → TACK group | 842 | Open in IMG/M |
| Ga0257142_1042761 | Not Available | 826 | Open in IMG/M |
| Ga0257142_1043153 | Not Available | 821 | Open in IMG/M |
| Ga0257142_1044583 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Dehalococcoidia → unclassified Dehalococcoidia → Dehalococcoidia bacterium | 805 | Open in IMG/M |
| Ga0257142_1046575 | Not Available | 785 | Open in IMG/M |
| Ga0257142_1052733 | All Organisms → cellular organisms → Eukaryota | 731 | Open in IMG/M |
| Ga0257142_1052964 | Not Available | 729 | Open in IMG/M |
| Ga0257142_1058632 | Not Available | 688 | Open in IMG/M |
| Ga0257142_1059842 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium | 680 | Open in IMG/M |
| Ga0257142_1062397 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei | 664 | Open in IMG/M |
| Ga0257142_1063050 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Escherichia | 660 | Open in IMG/M |
| Ga0257142_1063875 | Not Available | 655 | Open in IMG/M |
| Ga0257142_1066617 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria | 639 | Open in IMG/M |
| Ga0257142_1069322 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Escherichia | 624 | Open in IMG/M |
| Ga0257142_1072484 | Not Available | 608 | Open in IMG/M |
| Ga0257142_1077404 | Not Available | 585 | Open in IMG/M |
| Ga0257142_1082574 | Not Available | 563 | Open in IMG/M |
| Ga0257142_1091320 | Not Available | 532 | Open in IMG/M |
| Ga0257142_1094229 | Not Available | 523 | Open in IMG/M |
| Ga0257142_1096644 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium | 515 | Open in IMG/M |
| Ga0257142_1099073 | Not Available | 508 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0257142_1006897 | Ga0257142_10068972 | F093176 | MTTVKRILLVFVICVLAVAYLYQHSYSVRLTRNLSRLETERQLLTERLEGVGAEIVTLSGFVRMESLWVAQGRPEAPADQIAIVDGQVVAMAKHPGADAAAR |
| Ga0257142_1009936 | Ga0257142_10099362 | F018558 | MKKDYEAPKVITYSEDEIVEILGPAQTCSPSPCPTY |
| Ga0257142_1012110 | Ga0257142_10121103 | F079305 | MMRFIAALMACAGLATAAGFHVQGNMSEAWDKSTLRVRTGEGTAKLWFGLPPHSGITVVAKPDTGAAVTARMNMPSTIDLQTPSAYEITITRDSGAGQWTCKDAAGSPVLLGFGCSVDEKRHARLTYVADDDKETWTFTWPKEATFLVQLLGASGKIVEEQDLYYSDELELVGGGSFTFEIAPTDGSGEFSAKKSE |
| Ga0257142_1019613 | Ga0257142_10196132 | F079305 | MMMVAAGAALATAAGFQVQVNMSEAWDKSSFRVRAGEGGAKLWFSLPAHSGMTVVAKPDTGAAVTSRLNMPATVDLRLPSTYDITVTCDSGEGQWTCKDAVGSPALLGFGTSVDAKRHARVTYGADGQKETWTFTWPREAEFLVQVINASGKVVEEQDLYYSDELELVGGGSFTFEVAPTDGSGEFKAKKSE |
| Ga0257142_1022172 | Ga0257142_10221722 | F067889 | MDNKEEDVRRLIAAAAILAVVFVIGCQDTKKVTELQGQVDQLNQQITEMQTVVIAKLTAERDSLAKLVVDLQAKMPAVKGGTTKPPTGGGTGGGLKPPTKK |
| Ga0257142_1027721 | Ga0257142_10277211 | F093163 | MERKDVIDRAYQLINEPIDPNLKCAVELVDIVNYKESEAGETVEYFASSAQDRAADDIYAADANGTLTYHKIGLKTVTALTFVGLQSKLETVLIDEILNSKDQSALAQKKEAIIRAMDSEEVKRILALCLAVASQEVNKVTGMDLLDTIIKMKEKVSNYATDYVLLVASDVMNEIESYDKDNVSTFNYKMSIKEELAKIGIVKIVKVLGDSYLGGSTTPTLAAGKAILVGRNSGLAAGRPITFLRRKFSKEIAELSGAAEGAVRLIDVAKTPTVINGSSANTLGYGVFGYESIIQ |
| Ga0257142_1038401 | Ga0257142_10384011 | F105212 | SHKGSPKNGGSGQKFLIELEAKSHGSQDPHHRWVGVWDYEEQSEEARITKKC |
| Ga0257142_1040153 | Ga0257142_10401531 | F105212 | HKGSPKNGGRGRKFLIELEAKSNGSQDLRHRWVGVQAGKEQSDAGRTTARCQVFF |
| Ga0257142_1041322 | Ga0257142_10413222 | F030484 | MVDKKEEAIDAAISKMSQIKKAAGEFRENVAGLVKDVNIESKDWRFNVESHKEGVTIDIAIKLLMTKKEEDLETSN |
| Ga0257142_1042761 | Ga0257142_10427611 | F025295 | IMVTGPGEATELLRRREVLIPEKLKFITRKSNLQKQI |
| Ga0257142_1043153 | Ga0257142_10431531 | F004323 | MPLDGLRRLEGKATPVVASLSPVTRDYPSRALSGVFQAAALRLF |
| Ga0257142_1043153 | Ga0257142_10431532 | F000344 | MRLKHPRAAESGVGKHTARESESAQACAAGKERVANAHSHK |
| Ga0257142_1044583 | Ga0257142_10445831 | F088317 | MAGPEEKVKYPERPKITSAEVNKTAPKTRRDHYKGIQAPPVPKLEKSQLMEWVETGKPEDPSRYVMMPPREVPYRKLPLAVKFVSANTRHLKEIGAFRTMLPEIFGEAGYKAVDDAYASFADGEFRTAQARGMLKSAPNCSLQEIAAFICTVYDIQNFPIVIGEADYDNEVVRIQLYKGLPKYCPYDVRQGDYRLCAATAGYERELVKMCNPKYRAYLSRTKAIGDDCCELTIEVDPGNK |
| Ga0257142_1046575 | Ga0257142_10465751 | F008512 | LLLCISTVRTALAGANKIETAQRKMPKGGQKERTHREEHGNLAGSLKNFQTPAMLKTTPLDCEIKGNLREKRRDPWLRANAPPTAVADREPVVKTRTRFAGVS |
| Ga0257142_1052733 | Ga0257142_10527332 | F065812 | MGYKLLLRLNIDVRPIANKYCEGKIKRTLKRGLKDVKSLRRKL |
| Ga0257142_1052964 | Ga0257142_10529641 | F039953 | MLANPLELRGRHRVNNKNPEAALEADGWGNSMAEAYTGNSIGHREGRILLKVDIAPKY |
| Ga0257142_1058632 | Ga0257142_10586321 | F054975 | LITKKKFFLISEDELKKFHQYVFDGLSVFDDLDAKNLFHDVGSRQGQNDIRSWQLVCKYCPLNLRCEVLIEDTSKCQIFNKLTVRKYSLHAMEEIQFQRKRLQEIFDDMKKAGTCDNHCDICILCDNAGECVAEKAMRLLRESKIKDQSGTVCTA |
| Ga0257142_1059842 | Ga0257142_10598422 | F098546 | AFPLATMTQTKESGAGPSTKASWSVLVIYEDNAACDRAVGFCDQLVDRFWAKCDFEVSWWPFTLLKETVSAREAALKASGADLILFSTTPEGDFPLAVKAWIETWPKQRGGREGLLIGLMGSSTAPADQEGQKHHCLRNAAHHGAMDYLTQVPQDIALSIPNSLDSYTQRADQVTSLLDDILHQHLPPPSLSS |
| Ga0257142_1062397 | Ga0257142_10623971 | F044534 | PESCPVSSHTNQELSGKARLESALSRVRPTGGFDPCADAVTPEGFGCYCADQNAVTVPGGPTPPKGLTRSTREARKGVGTAGSERIWQNP |
| Ga0257142_1062397 | Ga0257142_10623972 | F000344 | MRPKHPHAAESGVGKHIARESERVQACATGKERVTNAHP |
| Ga0257142_1063050 | Ga0257142_10630501 | F000344 | MRPRHPHAAESGVGKHTARESESAKACAAGKERVANAHSHKLASEALT |
| Ga0257142_1063875 | Ga0257142_10638751 | F079305 | IVLACAGVAMAAGFFVQGNMSEAWDKGSLRVRTGPEMAKLWFGLPAHSGITVLAKPDTGAAVTTTLNMSATIDLRVPAEYAITVTRDSGDGQWTCRDAAGNPVLLGFGSSVDETHHVRLTYVADEDEETWKFTWPKEATFLVQLFGKAGKVVEEQDLSDSDEFELAGGGSFTLEVVPTEGSGEFSAKKSE |
| Ga0257142_1066617 | Ga0257142_10666172 | F055311 | MAEDLLDYWVRLIRTIFPANAWINSRFSNNDHLIQIDWKLQNDSENPTKRSKKIEIIIKEGAIEDYLDKNKKDRELSDIMLKEFICERYTNYISDNDIHINQYASTKTWLISRDVLNCKPSFDTPLRDQVKSVYL |
| Ga0257142_1069322 | Ga0257142_10693221 | F076133 | QELCRQARSETAPRGVRLAGRFDLQADAVAPEVHGCYCADQNAIAFPGGTTPPKGPDRHPTRARKGDAKAGRERT |
| Ga0257142_1072484 | Ga0257142_10724842 | F000388 | VKYEIIKVTKEYFQTEDEKVYFFEPLEKEISVEDMQKIVDANEKLVKELKNAKD |
| Ga0257142_1077404 | Ga0257142_10774042 | F093176 | MSMVRRMLLVFVLCVLAVAYLYQHSYSMRLTRNLSRLETERQLLAERLDGVNAEVVRLAGFARTESLWTAQGRPAVPSDRPGPVDGQSVALAQHPGADEAAH |
| Ga0257142_1082574 | Ga0257142_10825741 | F089118 | LVGMLLVFSLKSMQTGTRLNRQLAEVEQARETLSKMFPDSRFRIQLSTPNPGIRNLVVTIQPGRADSSSVESQVDTAESVIRRTVDLTGYDSLVVAVFDRVYRAAPAR |
| Ga0257142_1091320 | Ga0257142_10913201 | F094064 | KDYSGPVCPYVHLENFSKKVVRDLAVQYARAYSQIDGHWYDAVAKRYGEKIARDIDLEVWLRNIPPTALRTLEALGVKERDMAAILKVTQFHPAAGGGEYLWDYEVELKSPTVGIVKVLKCKPYEYYRDKGDEGFVRVMCRDWDIPMFGITGSAVIPGVKCRPLVIPPYDAPYDTK |
| Ga0257142_1094229 | Ga0257142_10942291 | F098292 | MSDVTRRIERWQKKYSPAQAKATLDLLQEGMRQRYEAATVEMAAMEMKVKEVLNQQGVHTTNYVPYLSYARQLWKLGRQQHITGESFAMASEVLLQKWAGRGQDPDVLAAIRSQVFNSPPPAP |
| Ga0257142_1096644 | Ga0257142_10966442 | F013725 | ETNNRGPLAKGQVWKTRAADIEIVALGKRLIHYRITRQFGRRKVSAQISGIEAMANYLAANSARLVKGHSTN |
| Ga0257142_1099073 | Ga0257142_10990731 | F018909 | RVNTLSHSKKGEITMKWVSIAIGAVIAISVIPTIVTSVAGLTGSGMALDGTVAGTLLDLAPLVFVASVLAFLFLKTGSKKVD |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |