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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300021088 Open in IMG/M |
| Scaffold ID | Ga0210404_10000012 Open in IMG/M |
| Source Dataset Name | Forest soil microbial communities from Barre Woods Harvard Forest LTER site, Petersham, Massachusetts, United States - Inc-BW-H-28-M |
| Source Dataset Category | Metagenome |
| Source Dataset Use Policy | Open |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Sequencing Status | Permanent Draft |
| Scaffold Components | |
|---|---|
| Scaffold Length (bps) | 380614 |
| Total Scaffold Genes | 383 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 288 (75.20%) |
| Novel Protein Genes | 9 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 6 (66.67%) |
| Associated Families | 9 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria → Acidobacteria | (Source: IMG/M) |
| Source Dataset Ecosystem |
|---|
| Environmental → Terrestrial → Soil → Unclassified → Forest Soil → Soil → Forest Soil Microbial Communities From Barre Woods Harvard Forest Lter Site, Petersham, Massachusetts, United States |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: Massachusetts | |||||||
| Coordinates | Lat. (o) | 42.481016 | Long. (o) | -72.178343 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000249 | Metagenome / Metatranscriptome | 1459 | Y |
| F001114 | Metagenome / Metatranscriptome | 774 | Y |
| F001548 | Metagenome / Metatranscriptome | 673 | Y |
| F003124 | Metagenome / Metatranscriptome | 506 | Y |
| F008825 | Metagenome / Metatranscriptome | 327 | Y |
| F019610 | Metagenome / Metatranscriptome | 228 | Y |
| F024747 | Metagenome / Metatranscriptome | 204 | Y |
| F056662 | Metagenome / Metatranscriptome | 137 | Y |
| F073961 | Metagenome / Metatranscriptome | 120 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0210404_10000012124 | F000249 | GGAGG | MRAFTWIVVFPVLMSVLGGAQSAPDHTMQKDEPREERMFFPRDTFWGWAQFDLAPPHNEIDPNLCAANAGTYQGVNSPCSLFARYMLSGMLEVRPFGRGQLRRLMIFGAPTFLFGKTLPKTLYTWSPDAIGIEHSWGAGIFIAKGFEFRVTQHFLFDRLGARSKYLGPADLGNNGPWGRYFTVGVRKSFGTRRW |
| Ga0210404_10000012141 | F001548 | GAGG | MFSVRVVLWTIAMAYTGFILTNQGLRTFNRLSITEAFLGALTGFFLAIMFALRERRRHRTAFVAHSIAQMFPEWGTPRENRDSHPN |
| Ga0210404_10000012160 | F019610 | GAGG | MRAYFANLTPTTQMLLAIPAVVLAYVLVTMVVPAIVHAAVPEAVRSVLRLM |
| Ga0210404_1000001217 | F001114 | N/A | MSEERGFISADQFHPDPYTQSRNAERTLNGAIVHADISRSYEEYLEIFDEFYADDIEGSSDTTEEPIRGKAGVRALVFGFLVPLHAMAEVGGVSIAVRQRSIPGDVVDETHSAWTLELVGATGRVCTVNWRIFRKWSDSRVVLEHHYDHQQGGEPLSDGDLKSNVLEPPTGFHKSS |
| Ga0210404_10000012240 | F024747 | N/A | MPYFPPELPKRAPRISFAENTPAVVRSRDGCRKGKLQTVSLTGGLLYLPKPVDQGAHVKLMFLTNSGSVLGAAEMLSPISWSLQPFKFLKLYDDDQRRLEATIRSTLKQSWRDRVQVERYRAW |
| Ga0210404_10000012316 | F008825 | GGAG | MDCVELQESLAEVEDGSGVEQQAHLRSCPACTALVKELDLIIAAAGELQGADEPSPRVWNSIEIALRQEGLIQPQRAGKPLLPSFVARWGAARWLVPAAAMLLLAVGIYVRRESQPQRLVQEASVTGPVSASDVDDADVMQEVATHAPTLKTQYEENLRQVNQSIRDAQGAVDENPNDEDARRSLMDAYQQKSMLFEMAMDRSLP |
| Ga0210404_10000012360 | F073961 | GGA | MTRHMAILCGILGIGLAVAVGQNEAAKSQGVRLQINEVQAGSMAAEQYCTVVFADRHFHTEKASRSRGKDTDRKVYEGTLSEADWNALGGIIDSASFRALNVPQGVPPLVIQDAHTVTISVARDAKFQNMEFLDNKSRKPYDAQLKPLLQWWKSFRGSRQPESHAAPDARCSLDSTHAVFSQ |
| Ga0210404_10000012361 | F056662 | GGAGG | MRRPFSPYLFPKCVLALTILMAAEVGTSQNAPAPLLRLQQSRANLNIDANVRHGQGLWGITFGNPGDVWQYPNSLSCLVVYGDGKYVLEKRDELTVGKPKVKKAEGTLAADDLQRLKAILDDGELKKVKTPSMPTLPDDAQAVRDIESLDAEIDHGGSTQRFTTVKERVKTGALISATSGPSTGMDTYLDNGALYKKTLTPLMKWFESIEKKSKSELKESKPQFCSPMNIG |
| Ga0210404_1000001260 | F003124 | N/A | MLVLPMAPVRRPRTKHGRRSVTLRPKITKQVETLARERDLSDNRVLVELIEQGIEARQQKEKAFFQLAERFRAADDPEQVKQLGNQLGRFVFGE |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |