| Basic Information | |
|---|---|
| IMG/M Taxon OID | 3300029652 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0128792 | Gp0224293 | Ga0206099 |
| Sample Name | Metatranscriptome of soil microbial communities from Anza Borrego desert, Southern California, United States - S3_20-13C (Metagenome Metatranscriptome) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 32296331 |
| Sequencing Scaffolds | 29 |
| Novel Protein Genes | 33 |
| Associated Families | 32 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| Not Available | 18 |
| 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 → Candidatus Eisenbacteria → Candidatus Eisenbacteria bacterium | 1 |
| All Organisms → cellular organisms → Eukaryota → Cryptophyceae | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Escherichia | 1 |
| All Organisms → cellular organisms → Bacteria → Nitrospirae | 1 |
| All Organisms → cellular organisms → Eukaryota | 3 |
| All Organisms → cellular organisms → Eukaryota → Cryptophyceae → Pyrenomonadales | 1 |
| All Organisms → cellular organisms → Eukaryota → Amoebozoa → Discosea → Flabellinia → Vannellidae → Vannella → Vannella robusta | 1 |
| Ecosystem Assignment (GOLD) | |
|---|---|
| Name | Systems Level Insights Into Methane Cycling In Arid And Semi-Arid Ecosystems |
| Type | Environmental |
| Taxonomy | Environmental → Terrestrial → Soil → Unclassified → Desert → Soil → Systems Level Insights Into Methane Cycling In Arid And Semi-Arid Ecosystems |
| Alternative Ecosystem Assignments | |
|---|---|
| Environment Ontology (ENVO) | desert biome → desert → soil |
| Earth Microbiome Project Ontology (EMPO) | Free-living → Non-saline → Soil (non-saline) |
| Location Information | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location | USA: California | |||||||
| Coordinates | Lat. (o) | 33.305 | Long. (o) | -116.2547 | Alt. (m) | N/A | Depth (m) | N/A | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000203 | Metagenome / Metatranscriptome | 1619 | Y |
| F000736 | Metagenome / Metatranscriptome | 914 | Y |
| F001024 | Metagenome / Metatranscriptome | 803 | Y |
| F002178 | Metagenome / Metatranscriptome | 586 | Y |
| F002454 | Metagenome / Metatranscriptome | 557 | Y |
| F005632 | Metagenome / Metatranscriptome | 394 | Y |
| F007793 | Metagenome / Metatranscriptome | 344 | Y |
| F008470 | Metagenome / Metatranscriptome | 332 | Y |
| F009507 | Metagenome / Metatranscriptome | 316 | Y |
| F010515 | Metagenome / Metatranscriptome | 302 | Y |
| F013276 | Metagenome / Metatranscriptome | 272 | Y |
| F017262 | Metagenome / Metatranscriptome | 241 | Y |
| F018339 | Metagenome / Metatranscriptome | 235 | Y |
| F023352 | Metagenome / Metatranscriptome | 210 | Y |
| F033058 | Metagenome / Metatranscriptome | 178 | Y |
| F034425 | Metagenome / Metatranscriptome | 174 | Y |
| F034481 | Metagenome / Metatranscriptome | 174 | Y |
| F036560 | Metagenome / Metatranscriptome | 169 | N |
| F039655 | Metagenome / Metatranscriptome | 163 | Y |
| F042748 | Metagenome / Metatranscriptome | 157 | Y |
| F044534 | Metagenome / Metatranscriptome | 154 | Y |
| F049453 | Metagenome / Metatranscriptome | 146 | Y |
| F052615 | Metagenome / Metatranscriptome | 142 | Y |
| F053640 | Metagenome / Metatranscriptome | 141 | Y |
| F055478 | Metagenome / Metatranscriptome | 138 | Y |
| F058016 | Metagenome / Metatranscriptome | 135 | Y |
| F070907 | Metagenome / Metatranscriptome | 122 | Y |
| F073141 | Metagenome / Metatranscriptome | 120 | Y |
| F075770 | Metagenome / Metatranscriptome | 118 | Y |
| F089751 | Metagenome / Metatranscriptome | 108 | Y |
| F094695 | Metagenome / Metatranscriptome | 105 | Y |
| F104572 | Metagenome / Metatranscriptome | 100 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0206099_104030 | Not Available | 1015 | Open in IMG/M |
| Ga0206099_104607 | Not Available | 950 | Open in IMG/M |
| Ga0206099_104730 | Not Available | 936 | Open in IMG/M |
| Ga0206099_105188 | Not Available | 895 | Open in IMG/M |
| Ga0206099_105202 | Not Available | 894 | Open in IMG/M |
| Ga0206099_105290 | Not Available | 886 | Open in IMG/M |
| Ga0206099_106201 | Not Available | 817 | Open in IMG/M |
| Ga0206099_106289 | Not Available | 812 | Open in IMG/M |
| Ga0206099_106326 | Not Available | 810 | Open in IMG/M |
| Ga0206099_106434 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila | 804 | Open in IMG/M |
| Ga0206099_106549 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila | 797 | Open in IMG/M |
| Ga0206099_106632 | Not Available | 792 | Open in IMG/M |
| Ga0206099_106686 | Not Available | 788 | Open in IMG/M |
| Ga0206099_108519 | All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Eisenbacteria → Candidatus Eisenbacteria bacterium | 696 | Open in IMG/M |
| Ga0206099_110281 | All Organisms → cellular organisms → Eukaryota → Cryptophyceae | 634 | Open in IMG/M |
| Ga0206099_110634 | Not Available | 623 | Open in IMG/M |
| Ga0206099_111358 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Escherichia | 604 | Open in IMG/M |
| Ga0206099_111475 | Not Available | 601 | Open in IMG/M |
| Ga0206099_111917 | All Organisms → cellular organisms → Bacteria → Nitrospirae | 590 | Open in IMG/M |
| Ga0206099_112865 | All Organisms → cellular organisms → Eukaryota | 568 | Open in IMG/M |
| Ga0206099_112970 | Not Available | 566 | Open in IMG/M |
| Ga0206099_113533 | Not Available | 554 | Open in IMG/M |
| Ga0206099_113798 | All Organisms → cellular organisms → Eukaryota → Cryptophyceae → Pyrenomonadales | 549 | Open in IMG/M |
| Ga0206099_113944 | Not Available | 547 | Open in IMG/M |
| Ga0206099_116328 | All Organisms → cellular organisms → Eukaryota → Amoebozoa → Discosea → Flabellinia → Vannellidae → Vannella → Vannella robusta | 508 | Open in IMG/M |
| Ga0206099_116518 | All Organisms → cellular organisms → Eukaryota | 505 | Open in IMG/M |
| Ga0206099_116769 | All Organisms → cellular organisms → Eukaryota | 502 | Open in IMG/M |
| Ga0206099_116798 | Not Available | 502 | Open in IMG/M |
| Ga0206099_116935 | Not Available | 500 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0206099_104030 | Ga0206099_1040301 | F042748 | MTRSTEMRAVYGLVFSTLALAVVVCLSVNSLESRAAAEVELFQQPADATMLKTEHFVPHNPFEDPELRPKYEVDTAKETKNSEADFKAARDEIKKGMGIMKAVLEKLTKQDDARDKLMDEAIGISDRIHSVRHLLINVKAEALGIQTKEDGNWIFTNPFGKGADPPNQDLAPFKKQVKDLTAKTEVINKDLNDLVKRTHSARNDAIVLDSDLYDEIHKAKLISADAVQGIHHHLDRVESFNHQDYDVVHRVDAKLNDKFRITRHRLNGMINLANAMSARQPNEVSEVTALATDLLIVNAETQERLKRMQDLLDNIEFERGFRAGK |
| Ga0206099_104541 | Ga0206099_1045413 | F055478 | MNPLIQQPGTREDLPRWGRRGMDDLTVEALARLHQTLDGWIRQRAHDPERPRRRPWVRHPHTAHPA |
| Ga0206099_104607 | Ga0206099_1046071 | F094695 | MADSQSAVSAIRASARTWDAVQRFRDEFDRVFVGPTLPVRRLPFPGASFRLSLSVVVRRVSRLRHSSLRLTCLLEALPSINWPRMRTRGRLSCDFVPYSARQKQASVSPGDSNLRHCPSSGFLTLSTSCSACNPGQLVSSGLRSWGSTGSAYSPPPFGGGRVKRAWVSSPKRSPFS |
| Ga0206099_104730 | Ga0206099_1047301 | F002454 | TSFSLGRPTDGLNYQRLTVQFPSPKDNGNTPATFDINFNVIALNNAPVIDVNNNTNDMVSITLVNGEKFQPSIVISDEDISNGNADIKITFAPADGSSLTFVDRSTNTVVKSTDIIETTADSVTLRGKLLSINAILSGFVFTPKAVDSSYTFTITANDNGNSGQCPVGKDGKPIPLDRLLYDASSICPLSTKAQVSVSYVDPTQLKTVAIAGSGAAVLVLGLIGAALAVRAFNKHAESAGYKPWDVFHESDAVLSNPLYEEAALGGASGIYEGKSNKDLLGSSSESPNYVGMDKQETN |
| Ga0206099_105188 | Ga0206099_1051881 | F073141 | MATEVKIKETKDPDETELVKYLTELYDTTKITEEEITQWNENYSYKGFDRLKVIKDLMRKVPNIKEAQQIIMICGLVGPQRAALVKLINGRVVSSYGIPASGMKGSTGVSCQRITAATADLCAFLLKKVNIPKRLNLPLPGWLQFPSAGSIKLPADLREMHIEFARRFSTAIGGVFNEQIYNQMMANAYLDPKLNLFHNYELSLSEPAPSGLLPAPAPTFAPTRGSVGPPKTADSERAKALRP |
| Ga0206099_105202 | Ga0206099_1052021 | F034481 | RMKLLSILSIVCFLVVLAAANHGDNEVGQQVVNPADWHGTWTSLNRYGGQTYTCPVGNTLYGVYSNAGFFVGTITDRVVEGVWFEGGRGDRNYYQGSFRITISDDNQEFDGVFNRLTTGNEIRWHESRLGAPYPSNPTLEECFAPDNTVENVLGSFYRSTETGALAGSTFICKDYWEQIYGSFHSPEGYLAGWSVDDATGFHGYRYDSTGESGAYILRALTRDRVKGFYWRGRLAIQNYPTSKYEAFDRSAFTASLTQCEQVGPGFVERLHGPDYVPYYLVNSSSIVSFSYLTFLLI |
| Ga0206099_105290 | Ga0206099_1052901 | F075770 | MRRSLVVSLALAAMVNAPAVAQTCQGLASFSAGQLQVVGNAQFPEAAKIWGASISYGMPSGIYGGADLSTTSFDNDGGSSLGIGAHAGYQMKLGQSGKINLCPVASLALGMGPDDDEAELNSSSTDAHFGIALGTEMGSTRQLRILPTAGLGLQYSKFKQEIGGTGPGAGEIEASETYGLARIGVGFVFNQQISVRPTVDIPVGVEGGADPVF |
| Ga0206099_106201 | Ga0206099_1062011 | F033058 | MGRTHSQKLWLTLCQAAKTRKRSYRRVLTWFAGRWRNHQSKRAEKPHSIIQSRKALDGPATRPTTPFAMENSVGKPAAARKGDAPNAGMGKRAWRTPI |
| Ga0206099_106289 | Ga0206099_1062891 | F001024 | MFDGPATRPKTPLAVENSVGKLTALERVERLMSAWERESDEL |
| Ga0206099_106326 | Ga0206099_1063261 | F049453 | MRPKTPLAVENGVGELAAHEAPNVSAGKRAWRTPIPKFPRS |
| Ga0206099_106434 | Ga0206099_1064341 | F023352 | MRPKHPHAAESGVGEHTARESEGAKRVPTGKSAWRT |
| Ga0206099_106549 | Ga0206099_1065491 | F104572 | MRPIALLAATNGVGDPAAHLTVERPMPEHGKESVASSH |
| Ga0206099_106632 | Ga0206099_1066321 | F044534 | EQSQRGGPEKRRRERGWDNPGRPGKGWRQLVPPSPHDGGSRLGGIYHQFLWPESCPVSQYTNQELCGEARLETVLSRVRPTGRFDPCAEAVTPEGFGCYCADQNAVVVSGGTTPPKGLALRKSEARKETPAAGSERT |
| Ga0206099_106686 | Ga0206099_1066861 | F052615 | VALGQRTAKSSGRPSAKRLRRGSEITDVSWPGPQAGGATTSPSELKSLTLASRGRKILDGPATRPETPLAVENGVGKLAAQAAPNVSTGKRVWRTPIP |
| Ga0206099_108519 | Ga0206099_1085191 | F005632 | LDGAFSAVEVSPWRSVAARLEYDTEKWNVGLGIDLGFGLRIRAAALNMESLSAGVGWHHE |
| Ga0206099_108519 | Ga0206099_1085192 | F058016 | MNFDHRNPRVRRGFAFVALAALLGLSVVGLSQCRLVDDTVTGVEMTSGSGTNARSDCVHQCNEAYKACKRAEDARHKQAKRDCGSDKACKKAEQRTHKDNKLACVRAMQECKRNCYNEGAGLGGR |
| Ga0206099_110162 | Ga0206099_1101621 | F000203 | GMGVRHALFPVPALGARALGGAAGFPTLFSTASGVFGLVAGPSRALRLLDFE |
| Ga0206099_110281 | Ga0206099_1102811 | F070907 | GTVDRVSPLVKESRRPRVVLLAGASVLLGLVALSALVAHMSEPTELLGQMLARGQDAREKTKVPKTVYAPPPEPADWDGSVAIIGKMPPTGVAPSGLQEAGFETRGSITVRRDLAAENMYFRIYGRINHHLKCTLRQYRRMAMEYQNEVIYTGFKRVYTGQSEIQTGHLPRTLNGEFDVLTIRDLDTGEVQYFRVH |
| Ga0206099_110634 | Ga0206099_1106341 | F008470 | LLDELIVVIAKIVAGVPLEWGQIPEKEKRNVLICALHCCLNGPVGVNKETTFPLVGVAQINRLVPVSNSSWRGFCALVAKMLVDKNVKVDCNAIRLLTTYWPLVDWPVRKQKLVQ |
| Ga0206099_111358 | Ga0206099_1113581 | F053640 | RTVAARRSEMVAESAIGILPGDRGKAGGSWCHPPLLAAKVVERHISPVPLAGVVSGQYTHESGTERRGTIRNRAESSQAHGRFRPVRQRSYPRGFRLLLCGPERSCGARRDDPAKRPSSTHEPGAQGNRSSGERTDLGKVRETSSLGWREKARHPAANAKAT |
| Ga0206099_111475 | Ga0206099_1114751 | F034425 | LKSQNLLSANVWDFKDDRISNSMSDVPELNGSIKLIVTFVVFQERSFNRDTFVFRDDHVVLTSLSGVSIPFGMKSSSDDQFTFFVMVFSDTSFTHWFNFFDGTFISFNEENSVLSVLAGDFFKDSEHVPFTVVVSESINSEALVLIIVGDGLEEAGVTFSVPSSNFSFPFWRSTASTSVLSGSKGDKHQDKGEELHLYS |
| Ga0206099_111917 | Ga0206099_1119171 | F018339 | TMLLTFSLPDGTRAGIRPTHDLKDLTIAQLGLDCLAQSGEASVVFHVSTKQALHRVRERFALTDC |
| Ga0206099_112865 | Ga0206099_1128651 | F000736 | RRSNMSEDRAARRNRGGGASAAGEGVVGIPDALLQELIQAFTYIADPSGAGDVTTVKLTEDRLDRLVRSLGIKTSARDMMRDAGGKELDFIGFRDMMIARIKQSDSEENIRNNFQKFENTKGSGKISARELKTALKKMGRVPLRDSEIEEFLRIPGIESDGFIYYEKFMLEFFGEKSKSA |
| Ga0206099_112970 | Ga0206099_1129701 | F009507 | VADIVVVDIGIKGVVVPVVVEESSRDWEAVFLRDKHVGLGLFASIAEQLGTERSTNGQVELFVVVVTHADLAERNITTFLLAGVLHVSEDGNVLVLVAKNELRDEESSVLADFVDEEVSTESCALFVVFIGDELESTEVLHLVVHGGNSFPPVGCAAV |
| Ga0206099_113245 | Ga0206099_1132451 | F089751 | VDVYGQNATYDISYLRGLENCHQFDGAGRSDGLDFCAGLVPYNTWRWDDYTKLDNEAQCFFEELYNHFRVQPCWSGVTTDCNATLQQFACYESFRACDAQGFYVGTCRNACNSVVYECVNWFESVNLEHYNCTSSRYIDEESYYCTGVGSFPSFNPADSQNFFGNPDDILYLQENHFFLEQDI |
| Ga0206099_113533 | Ga0206099_1135331 | F002178 | GFLVALLCTFIVGAIAQTRPVLNNDFEAKTMFVHRLANGTMRHIDGIWWEDYTNIRTAFDAEIRGVGRVDIITLFSDDPTKNSTEYFHIRHSNKCHDRSFLGKAFPVFSWVANAKMGSDCKHRHGGQGTSWVSTGTAPQPTVTLCANHNGTLPFWIDVKWATGEQRFADFFTYTAGTPNPSHFA |
| Ga0206099_113798 | Ga0206099_1137982 | F036560 | ENLYGKHAAALYAQAGDFNKTARFYYMKAEDAYYLANSQASFDDWRRARRQWDYFYHRK |
| Ga0206099_113944 | Ga0206099_1139441 | F039655 | RDMRAAVVLLAAVAAVAVAQPMTCIVDPGTIFVNTTCTVSAPKGATPGNNVTIQLAGVTTKSIIAGVFKFQIYEDYVPNFVSSGNIQYFVCTIKGCDTSDPIALTLASSSVPTNFTGIIPFVVPQPQKTGRYKVTFWGEDQDHYPYDVTGTLSLVQSCSTDADCPPGSYCKNGPGQSPPYSC |
| Ga0206099_116328 | Ga0206099_1163281 | F013276 | KVLLVLALFVTLSFCQIQLLSPSGRGFSEFYSHYAPCGQGSTQVGSSIQWEHGTIHQIEVQVIGAGGGGVLFDRYSCVLNGDDANNLGPVFPIEGALKVAIPDSDFQIYDLYVQAPGLHCVGQATMQLVYATYNGQEYYQCQDLIITNTPNASSALTVNVLLVLFVAF |
| Ga0206099_116518 | Ga0206099_1165181 | F007793 | PSVYMSEAQDLKDAFEAFAEGKPHLSKVECMMAIHALCKNPIQSDLNGAMSSMGDDISFAQYQQLFGKAWPRPDQQQSDLSKLMQMLDHDDNGKVQEGEFRQLLLSVGDVLSHQEVDLLFEEVPVDDQGFFRYDALVDKLVGGHMPGMH |
| Ga0206099_116769 | Ga0206099_1167691 | F010515 | AMSKGPSKEALQDCFKAFDSEQHAHLTKSEVKVCVRAMGKTPTEKDIDAALSKLGEDVSFEQFQTVYNNPFPNPESFDADARSVLKMLDPNGSGWMAESEIRQILATIGEPMNHSDIDLLMEEVKVNDKGQFRYEDFVTMMVTGYLDAAQ |
| Ga0206099_116798 | Ga0206099_1167981 | F017262 | AKPTTCPRPKCELQCSKPACDVKDKQRCCKCGAKGAKRALAAAPRFEEVHGDAEMMPSFMEVVATFQHGAQNGVEECCPCKAAKRK |
| Ga0206099_116935 | Ga0206099_1169351 | F002178 | DFSARTVFAHRLANGTMRHIDGQWYEDYTNIRSAFDAEVKGVGRVDIITLYSSDPNKNATEYFHVRSSKRCHQRSFKGKAFPVFDWVANAKQGSVCKHHHGGPGTSWVSTGTMPHPTVTLCASNDGTLPFWIDLKWQTGEQRFADFFSYTPGAPDPKHFVLPPACH |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |