| Basic Information | |
|---|---|
| IMG/M Taxon OID | 3300003672 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0053052 | Gp0053805 | Ga0001194 |
| Sample Name | Estuarine microbial mat communities from Elkhorn Slough, Moss Landing, CA, USA - CR2A Metatranscriptome (Metagenome Metatranscriptome) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | Y |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 4726411 |
| Sequencing Scaffolds | 17 |
| Novel Protein Genes | 18 |
| Associated Families | 15 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| Not Available | 14 |
| All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila | 2 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Streptomycetales → Streptomycetaceae → Streptomyces → unclassified Streptomyces → Streptomyces sp. 351MFTsu5.1 | 1 |
| Ecosystem Assignment (GOLD) | |
|---|---|
| Name | Estuarine Microbial Mat Communities From Elkhorn Slough, Moss Landing, Ca, That Are H2-evolving And Photosynthetic |
| Type | Environmental |
| Taxonomy | Environmental → Aquatic → Marine → Intertidal Zone → Estuary → Estuarine → Estuarine Microbial Mat Communities From Elkhorn Slough, Moss Landing, Ca, That Are H2-evolving And Photosynthetic |
| Alternative Ecosystem Assignments | |
|---|---|
| Environment Ontology (ENVO) | estuarine biome → estuary → estuarine water |
| Earth Microbiome Project Ontology (EMPO) | Free-living → Saline → Water (saline) |
| Location Information | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location | Elkhorn Slough, Moss Landing, CA | |||||||
| Coordinates | Lat. (o) | 33.8 | Long. (o) | -121.8 | Alt. (m) | N/A | Depth (m) | N/A | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000344 | Metagenome / Metatranscriptome | 1257 | Y |
| F001633 | Metagenome / Metatranscriptome | 660 | Y |
| F006338 | Metagenome / Metatranscriptome | 375 | Y |
| F007777 | Metagenome / Metatranscriptome | 345 | Y |
| F012439 | Metagenome / Metatranscriptome | 280 | Y |
| F014631 | Metagenome / Metatranscriptome | 261 | Y |
| F016001 | Metagenome / Metatranscriptome | 250 | Y |
| F023129 | Metagenome / Metatranscriptome | 211 | Y |
| F027071 | Metagenome / Metatranscriptome | 195 | Y |
| F030355 | Metagenome / Metatranscriptome | 185 | Y |
| F034588 | Metagenome / Metatranscriptome | 174 | N |
| F035643 | Metagenome / Metatranscriptome | 171 | Y |
| F070802 | Metagenome / Metatranscriptome | 122 | Y |
| F081239 | Metagenome / Metatranscriptome | 114 | Y |
| F100491 | Metatranscriptome | 102 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0001194_100103 | Not Available | 572 | Open in IMG/M |
| Ga0001194_100273 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila | 587 | Open in IMG/M |
| Ga0001194_100342 | Not Available | 513 | Open in IMG/M |
| Ga0001194_100473 | Not Available | 663 | Open in IMG/M |
| Ga0001194_100578 | Not Available | 543 | Open in IMG/M |
| Ga0001194_100617 | Not Available | 570 | Open in IMG/M |
| Ga0001194_100711 | Not Available | 593 | Open in IMG/M |
| Ga0001194_101001 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Streptomycetales → Streptomycetaceae → Streptomyces → unclassified Streptomyces → Streptomyces sp. 351MFTsu5.1 | 585 | Open in IMG/M |
| Ga0001194_101450 | Not Available | 695 | Open in IMG/M |
| Ga0001194_101572 | Not Available | 576 | Open in IMG/M |
| Ga0001194_101592 | Not Available | 592 | Open in IMG/M |
| Ga0001194_101612 | Not Available | 711 | Open in IMG/M |
| Ga0001194_101976 | Not Available | 1054 | Open in IMG/M |
| Ga0001194_101992 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila | 764 | Open in IMG/M |
| Ga0001194_103167 | Not Available | 600 | Open in IMG/M |
| Ga0001194_103273 | Not Available | 636 | Open in IMG/M |
| Ga0001194_104196 | Not Available | 563 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0001194_100103 | Ga0001194_1001032 | F006338 | VVLENGILSGPATRPKTPLAVENSVGKLAAAEMWRQMPAREREPGELPSPVWS |
| Ga0001194_100273 | Ga0001194_1002732 | F000344 | MRPKHLHAAESGVGKHNARESESVQACAAGKERVTNAHPH |
| Ga0001194_100342 | Ga0001194_1003422 | F000344 | MRPKHPHAAESGVGKHTARESERAQACAAGKERVANAHPH |
| Ga0001194_100473 | Ga0001194_1004731 | F081239 | LLSRIAGPGAEAEFTGSSDTFARVSNAKKELGNEERLETVPSWIK* |
| Ga0001194_100578 | Ga0001194_1005781 | F035643 | GMHRTEHCNRWRRAHHLSAPQRVFSPPAGSMLSGTPRAAIDQGRSLVTAFRSPVTAAPSRSPHPKVNVPGLLLRNLPPGRTARSDFRSATASGSPRTAAASSRQSRCSASTRFERLLPRSPLPFGPVTSLRIKAFNHIGCHSARLPASPDFLSLPEACSIPRPASDHRSRFATFPKACCS |
| Ga0001194_100617 | Ga0001194_1006171 | F034588 | SFGGAGCESSRLPLRFAPPVSPTISIRVAPDAHPPVPADFRSESPRSSVPSGCPHRISGLLRRLALSFVARPFPKSPWFLLAQRRRFRPPRVASKPSSSADPYLLPQVAPASASTAGSMITPWLNRTLHPRLAPWMNLRYQSGTSIPYLTSSALLISIHCPQSADHEL* |
| Ga0001194_100711 | Ga0001194_1007111 | F014631 | VPSDPMDCSLSDRHARPELGIRIGSDVGPLLPAAGLIQLRIVALVLVRSPFR* |
| Ga0001194_101001 | Ga0001194_1010011 | F030355 | VPSDLISSLALRGHAPHRASRSIALDVSPVSSPTGVFATRRINAFRHAACCSRSGPVARNGLSLACNGCSFSEHPSQGQRSGPATSLPSARLHCPFGFPLRHRFPVGPGRRRHRRVNPVAALARASIGCSCGLHSPSGLLHPSGSKRSTASAAIRPAFRIRPISSRSPKPVLFLGSASDHRSWSATFPEARCSSN |
| Ga0001194_101450 | Ga0001194_1014501 | F012439 | RASRLLRSPAACAPPFVLRSNLATRSDSRRAPPLGSSSLIATSAGGVHHSAGNPDPAVTFRPRRFSRPRRFPPPPAFAGLFHPAATSRVCPSGVCPSPRSRTGFPRPIHALLALNADTCDQRPRPRLQGFAPRRECGVGRDGLGLDRSAPLVGFSSSGFSXRATWECLHIPSALDLHSARNP* |
| Ga0001194_101572 | Ga0001194_1015722 | F006338 | MLGGPATRPKTPLAVENSVGKLAAPETGRQMPARERESGELP |
| Ga0001194_101592 | Ga0001194_1015921 | F007777 | LRGSVARPVLGVVERKAASRSGLLPVMEADAHLRTDPQLGKTSGGEQRAHVSPDSDATFRPRMPVGEQTARGSLG |
| Ga0001194_101612 | Ga0001194_1016121 | F027071 | NRVFSLSTILTSSYPLIKRARKKRCSNLISFYQHSRSIFAALPCGGAVSSNAIDNNIELKLTTTPLRKQLPLFVQRRHRPSMPLAPALANLRSKHKRQHGNAPSGQRINSLRNHFTGKRFASSLPLHQLSLTLRIKITGHFNKAKLNSTDTSLLAKLCISSANALANILAIGNFTLLANHQTAVPEEISFDLLGPFNRRYCYPRSAAISASCPTNTSTLNRRDNSCKYCYLAEVIR |
| Ga0001194_101976 | Ga0001194_1019761 | F070802 | PALRIIRILPSAISSILYISSSVLAIMKQYSSIVLFMLVAISGHALGAPLDGSNGDCPGGLANGAQIERGRSVFECRNGNVVAKACVADDLKHIDIGSTTDKKAFRLQCTVNSDGSATLEPTACLHQGQEHKVDEQWEDSTNFYTCKKSETELKVITAGCIDQGKRVPLNQQAAHDDFVFVCNGTVNNGARMMPSGCVKDGKQYNVGDSFEAGNLWFNCTRTGSEKVAAKAAGCVTNGKRVNDGDRYSDNEVIQECDINGQPRLIGCAERDDKGEIVERRVGCTWVEGPEPFQYEWTCRQESNSAKKVQVRCNYKVGGGVYNIEPGCYRVIDKSAFGCLNNAGTLKLQSFQ |
| Ga0001194_101992 | Ga0001194_1019922 | F001633 | HSLFPGGTRLDALAFAGGVLPDATLRGMRMFRSHGGTVLTVAGRDLSSEASAPGSVTPAGGGSPDVVRTRLQTNFSRPYRCHRDGASLWLAVGPVLRV* |
| Ga0001194_102164 | Ga0001194_1021641 | F100491 | CSPTGMHGPNVASGTGET*ALCFPLKVLANRGSLRRCASALHSDRSPLLDATFRSTAPRTGLATDPRNCVNVPGLHLRNDPQIRSGPFGYVLPHPLCLLWLGGRDLHTNPLPNPT*RLIARLRTSAPLRELSLPRDQSSQPDFELQSLPLQVARSSFAPRSAATVLWIAQRFGSSFQIRYFLPGSLS |
| Ga0001194_103167 | Ga0001194_1031672 | F023129 | MKSNLRVKRRDPWPRANALPKAAADPELSGQDADQKSQTCLDPVREPVAQPLVQAS* |
| Ga0001194_103273 | Ga0001194_1032731 | F016001 | VWESAVAATVFSRRFDPIPSWAFLLQVFTLDAVRTLSRPLPLMVLMATLSSHYRHRPTAFRHRAWLASLEVAYLLEVL |
| Ga0001194_104196 | Ga0001194_1041961 | F027071 | QAIRDLSLSSILISSCPLIKSAWKKISSNLISFYLHTHSKIAALPCGGAVSPNAIDNNIELKLTTTSLRKQLPLFVQRCHPPSASLAPILANLRSKYKRQQSNAQSGQRINPLRNYSAGSCLAPSRPLHQSPSSLRIRITGNINKAKLNNIGTSHLAKNCAGGSITLAGSLAVSNLTLLANHQTAMP |
| ⦗Top⦘ |
 |
Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |