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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 | 3300028619 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0046785 | Gp0297563 | Ga0257136 |
| Sample Name | Metatranscriptome of saline water microbial communities from Sakinaw Lake, British Columbia, Canada - sak_2010_1_5_45m (Metagenome Metatranscriptome) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 149912489 |
| Sequencing Scaffolds | 26 |
| Novel Protein Genes | 28 |
| Associated Families | 23 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| Not Available | 16 |
| All Organisms → cellular organisms → Bacteria | 3 |
| All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Verrucomicrobiae → Verrucomicrobiales → Verrucomicrobia subdivision 3 → unclassified Verrucomicrobia subdivision 3 → Verrucomicrobia subdivision 3 bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Nevskiales → Steroidobacteraceae → Steroidobacter → Steroidobacter denitrificans | 1 |
| All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila | 2 |
| All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → candidate division WOR-3 | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Escherichia | 1 |
| All Organisms → cellular organisms → Archaea → TACK group | 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) | 45 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000344 | Metagenome / Metatranscriptome | 1257 | Y |
| F001785 | Metagenome / Metatranscriptome | 635 | Y |
| F004178 | Metagenome / Metatranscriptome | 449 | Y |
| F004323 | Metagenome / Metatranscriptome | 443 | Y |
| F018909 | Metagenome / Metatranscriptome | 232 | Y |
| F019930 | Metagenome / Metatranscriptome | 227 | Y |
| F030484 | Metagenome / Metatranscriptome | 185 | Y |
| F038530 | Metagenome / Metatranscriptome | 165 | Y |
| F041277 | Metagenome / Metatranscriptome | 160 | Y |
| F056622 | Metagenome / Metatranscriptome | 137 | Y |
| F056992 | Metagenome / Metatranscriptome | 137 | Y |
| F059490 | Metagenome / Metatranscriptome | 134 | Y |
| F062245 | Metagenome / Metatranscriptome | 131 | Y |
| F067889 | Metagenome / Metatranscriptome | 125 | Y |
| F071959 | Metagenome / Metatranscriptome | 121 | Y |
| F074370 | Metagenome / Metatranscriptome | 119 | Y |
| F088317 | Metagenome / Metatranscriptome | 109 | Y |
| F089118 | Metagenome / Metatranscriptome | 109 | Y |
| F093176 | Metagenome / Metatranscriptome | 106 | Y |
| F094064 | Metagenome / Metatranscriptome | 106 | N |
| F098292 | Metagenome / Metatranscriptome | 104 | N |
| F099149 | Metagenome / Metatranscriptome | 103 | Y |
| F105212 | Metagenome / Metatranscriptome | 100 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0257136_1001653 | Not Available | 4125 | Open in IMG/M |
| Ga0257136_1008026 | All Organisms → cellular organisms → Bacteria | 2090 | Open in IMG/M |
| Ga0257136_1011560 | Not Available | 1740 | Open in IMG/M |
| Ga0257136_1011717 | Not Available | 1728 | Open in IMG/M |
| Ga0257136_1013388 | All Organisms → cellular organisms → Bacteria | 1612 | Open in IMG/M |
| Ga0257136_1014167 | Not Available | 1563 | Open in IMG/M |
| Ga0257136_1021230 | All Organisms → cellular organisms → Bacteria | 1246 | Open in IMG/M |
| Ga0257136_1024619 | Not Available | 1143 | Open in IMG/M |
| Ga0257136_1035511 | Not Available | 920 | Open in IMG/M |
| Ga0257136_1037620 | Not Available | 888 | Open in IMG/M |
| Ga0257136_1037646 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Verrucomicrobiae → Verrucomicrobiales → Verrucomicrobia subdivision 3 → unclassified Verrucomicrobia subdivision 3 → Verrucomicrobia subdivision 3 bacterium | 888 | Open in IMG/M |
| Ga0257136_1043068 | Not Available | 818 | Open in IMG/M |
| Ga0257136_1043267 | Not Available | 816 | Open in IMG/M |
| Ga0257136_1043341 | Not Available | 815 | Open in IMG/M |
| Ga0257136_1043896 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Nevskiales → Steroidobacteraceae → Steroidobacter → Steroidobacter denitrificans | 809 | Open in IMG/M |
| Ga0257136_1044017 | Not Available | 808 | Open in IMG/M |
| Ga0257136_1044235 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila | 806 | Open in IMG/M |
| Ga0257136_1044270 | All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → candidate division WOR-3 | 805 | Open in IMG/M |
| Ga0257136_1045338 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila | 794 | Open in IMG/M |
| Ga0257136_1045905 | Not Available | 788 | Open in IMG/M |
| Ga0257136_1048404 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Escherichia | 763 | Open in IMG/M |
| Ga0257136_1051647 | Not Available | 732 | Open in IMG/M |
| Ga0257136_1057392 | Not Available | 686 | Open in IMG/M |
| Ga0257136_1062834 | All Organisms → cellular organisms → Archaea → TACK group | 649 | Open in IMG/M |
| Ga0257136_1077473 | Not Available | 572 | Open in IMG/M |
| Ga0257136_1088878 | Not Available | 527 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0257136_1001653 | Ga0257136_10016534 | F062245 | MTICLEMTIQKWNGQSGDMVNITDAPEGSTFHAVDTGAKYLWHNDGWVEDLRDIYVAEHV |
| Ga0257136_1008026 | Ga0257136_10080262 | F093176 | MTTVKRILLVFLICVLAVAYLYQHSYSVRLTRNLSRLETERQLLTERLEGVGAEIVTLSGFVRMESLWVAQGRPEAPADQIAIVDGQVVAMAKHPGADAAAR |
| Ga0257136_1011560 | Ga0257136_10115602 | F071959 | MASRNYLVMSNDMTFTDKKEYRTKALAAGLERCGTKSIGDINSDVPGLQAIPIANKSARVAAIKAYIETGAWPKTIDQRELAPLTDFVAAAAQDFWQTIALAAIGTVYTCLNALPAYTLPAGRLMVCYGVSVDVAVLPVSRLIFRRGGVGGNIQAQFDMQPLGTRLETAAFFSEPVVIDPQELFAIQVLCQVIAGVTPVHIDNFLFEGAGIVVA |
| Ga0257136_1011717 | Ga0257136_10117172 | F019930 | MRKLNLRDYIIKTKLPDKMNPMQEIDTEYPYHVKDTILNLMFIPQLQLTGAELVKQNVLAMKLEACKDDEIILEDAEYDRIKRAFDTFRGFGRFDVELVTRINEAEVVEVEPKK |
| Ga0257136_1013388 | Ga0257136_10133881 | F094064 | MKDYSGPVCPYVHLENFSKKVVRDLAVQYARAYSQIDGHWYDAVAKRYGEKIARDIDLEVWLRNIPPTALRTLEALGVKERDMAAILKVTQFHPAAGGGEYLWDYEVELKSPTVGIVKVLKCKPYEYYRDKGDEGFVRVMCRDWDIPMFGITGSGVIPGVKCRPLVIPPYDAPYDTKPDLGIACVWEYSIEPEKAAKVKTAAKKK |
| Ga0257136_1014167 | Ga0257136_10141673 | F074370 | MADELAKKLAEAKKKMFGAQQPSGKIIILVKGDSLIKSADPKVEVRQQE |
| Ga0257136_1021230 | Ga0257136_10212302 | F059490 | MRKKILVNALSKNLDKMSKSPWVRSIKDGKDLICPYCDQLVQPCKTDPSAVCEHMMLSGTEGKELENALKDPDKGNYGICLSCGKQISSAHLKRHPTADVCSHCVQKGHKIHPGKSAHTR |
| Ga0257136_1024619 | Ga0257136_10246192 | F067889 | VKRLIAAAAILAVVLVMGCQDTKKVTELQGQVDQLNQQITEMQTVVVAKLTAERDSLAKLVVDLQAKMPAVKGGTKPPTGTKPPTTKVVKPPIKK |
| Ga0257136_1035511 | Ga0257136_10355111 | F071959 | MASRNYLINSNDMTLTDKKDYRTKALAAGLDRCGQKGIGNINADVPVLAGIPPANMEARVAAIIAYIETGKWPTTIDQRELAPLTDFVAAAAQDFWVTPALAAVGTVYTCLNALPAYTLPAGRLMVCYGVSVDVAVLPVSRLIFRRGGVAGNIQAQFDMQPLGPRLETAAFFSEPVVIDPQDLFAIQVLCNVIAGATPVHIDNFLFEIQGAVIA |
| Ga0257136_1037620 | Ga0257136_10376202 | F105212 | HKGSPKNGGSGQKFLIELEAKSHGSQDPHHRWVGVWDYEEQSEEARITKKC |
| Ga0257136_1037646 | Ga0257136_10376461 | F001785 | MTLTRRRQTVFPLEWCRRVGLEHGGPLNLFDLGEGGLLIRPVKPLTKAEIAALLAQPPAGNHSAKEIRRIVERALREVRAE |
| Ga0257136_1043068 | Ga0257136_10430682 | F000344 | MRPIHPHAAESGVGKHTARNCESAQACAAGKERVANAHPH |
| Ga0257136_1043267 | Ga0257136_10432671 | F000344 | MRPKHPHAAESGVGKHTARESESAKRCAAGKERVANAHP |
| Ga0257136_1043341 | Ga0257136_10433411 | F004323 | MPLDGLRRLEGKATPVVASLSPVTRDYPSRALSGVFQAA |
| Ga0257136_1043341 | Ga0257136_10433412 | F000344 | MRLKHPRAAESGVGKHTARESESAQACANGKERVANAHSHKLAP |
| Ga0257136_1043896 | Ga0257136_10438961 | F088317 | MPGPEDKFSYPPRPTLTQDDVNKDRPTTRRDAYEGIKAPPLPPMDKSQILRTIESGFKEPEEAGRYVMRPSADLPYRVLSLNTKFHSCNTRHLKEIGAFRTLAPELFGDAGYKLVDDAYASFAYSEFATARARGQLKNAPNCTAREIGAFIATVYDIQNFPIVIAEASDKRVRIQLYKGLPIYCPYDVRRGDYRLCAATAGYERELTKLCNPKLRAYLSRTKAIGDDCCELTIEPDPNA |
| Ga0257136_1044017 | Ga0257136_10440171 | F041277 | MRPETPLAVENGVGKPAAHEAPNVGTGKRAWRTPIP |
| Ga0257136_1044235 | Ga0257136_10442352 | F004178 | MRPTASHAAKSSVGKHTARESEAPNVCDWERARGERPPP |
| Ga0257136_1044270 | Ga0257136_10442702 | F056992 | SLSLLSKFVDTDRAEVVDARATGGEVIKIPMRERIFPIQALPAVADNLAWFLEQVTGRGYQKAEEAYDGGFTVREPGHQAYGLKVNAEANIVIIARVALLEDDTIFQRYVNYLRTGVYL |
| Ga0257136_1045338 | Ga0257136_10453381 | F038530 | MRPIASHAAVSSVGKHTARESEAPNAVRMGKSAWR |
| Ga0257136_1045905 | Ga0257136_10459052 | F071959 | MASRNYLVMSNDMTFTDKKEYRTKALAAGLERCGLKSIGDINSDVPGLQAIPIGNKSARVAAIKSFIETGVWPKTIDQRELAPLTDFVAAAAQDFWQTIALGAIGTVYTCLNALPAYTLPAGRLMVCYGVSVDVAVLPVSRLIFRRGGVAGNIQAQFDMQPLGTRLETAAFFSEPVVIDPQELFAIQVLCQVIAGVTPVH |
| Ga0257136_1048404 | Ga0257136_10484041 | F004323 | MPRNGLRRLEGRATPAVAIHSPVTRDYPSRALSDVFQAAALRLF |
| Ga0257136_1051647 | Ga0257136_10516473 | F099149 | MLVGVLVSIMISIVVGVSLVPTIVSAINTAKNTPGIPTGLSGLLDVLSYVFVAIILLSAVAWIGGQG |
| Ga0257136_1057392 | Ga0257136_10573922 | F089118 | LIWVILFAVLVGALVLFSLKSMQTGTRLSQRLGEIEQARETLSGMFPDSRFRVQFSAPKPGIRNLVITIQPGHADSGAITQMVESAESVARRKVDLTGYDSLVVAVFDSVYRTVPAR |
| Ga0257136_1062834 | Ga0257136_10628342 | F030484 | MVDKKEEAIDAAISKMSQIKKAAGEFRENVAGLVKDVNIESKDWRFNVESHKEGVTIDIAIKLLMTKKEEDL |
| Ga0257136_1077473 | Ga0257136_10774732 | F018909 | MKFVRIAIGAVIAISVVGTIVTAVVALTGTGMALEGTVSGTLLDLAPVVFVAGILAYLFSLSGGRGD |
| Ga0257136_1088878 | Ga0257136_10888781 | F098292 | MSDVTRRIERWQKMYSPAQTKATLDQLHEGMRQRYEAATKEMAAMELKVKEVLNTAGVHTTNYVPYLSYARQLWKLGRQQSITGESFAMASEVLLQKWAGRGQDPDVLAAIRTQVFNSPPPAP |
| Ga0257136_1096891 | Ga0257136_10968912 | F056622 | KMETGEKQNKGKEQDLLDCLLSILDSLKLYDTNSLELGNETLSEMMFRKMKGYGIDLNKELNFTHLKPITKKK |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |