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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300021961 Open in IMG/M |
| Scaffold ID | Ga0222714_10003974 Open in IMG/M |
| Source Dataset Name | Estuarine water microbial communities from San Francisco Bay, California, United States - C33_3D |
| 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) | 14752 |
| Total Scaffold Genes | 36 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 10 (27.78%) |
| Novel Protein Genes | 13 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 1 (7.69%) |
| Associated Families | 13 |
| Taxonomy | |
|---|---|
| Not Available | (Source: ) |
| Source Dataset Ecosystem |
|---|
| Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine Water → Estuarine Microbial Communities From The San Francisco Bay-Delta (Sfbd), California, United States |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: California | |||||||
| Coordinates | Lat. (o) | 38.0516 | Long. (o) | -121.88 | Alt. (m) | Depth (m) | 13 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000962 | Metagenome / Metatranscriptome | 820 | Y |
| F007859 | Metagenome / Metatranscriptome | 343 | Y |
| F009135 | Metagenome / Metatranscriptome | 322 | Y |
| F009604 | Metagenome / Metatranscriptome | 315 | Y |
| F010081 | Metagenome / Metatranscriptome | 308 | Y |
| F014847 | Metagenome / Metatranscriptome | 259 | Y |
| F016528 | Metagenome / Metatranscriptome | 246 | N |
| F020529 | Metagenome / Metatranscriptome | 223 | Y |
| F027823 | Metagenome / Metatranscriptome | 193 | Y |
| F028095 | Metagenome | 192 | Y |
| F038644 | Metagenome / Metatranscriptome | 165 | Y |
| F041152 | Metagenome / Metatranscriptome | 160 | N |
| F042296 | Metagenome / Metatranscriptome | 158 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0222714_1000397416 | F010081 | N/A | MKEQIDSIIKKHCLKMQEVDHTKSIPMIVKQLDGIVYDMYRELYGLRDIRSNNYYLNSFTADNKKGHCC |
| Ga0222714_1000397417 | F007859 | N/A | MKKLLIITLLCAGCETGMFLRYSYNRALEKLPPCSKVHAINNNYITYSMEEQSTNNVYTTHTNYYRAYYNVDGKITKTIKN |
| Ga0222714_1000397418 | F042296 | N/A | MNLFKSVIKWTGVGVYACFLATIAYAATMPEPIKLYVIYTYKFNERVIEKIFIKKDNAQKYCETYKDNHDYTFEEITVKE |
| Ga0222714_100039742 | F027823 | N/A | VNVTAAINVPCVSQTNLWKGCFESHFMSGREIDAKYPILNTKWKYSHHKLLDCYDGCYYAYEKDIGTGIMFDPWLREFKVNMPIADDVYIYIIDDVYKSKMYYTTVESNVILLVVI |
| Ga0222714_1000397420 | F009135 | N/A | MNKAKYYLQINLPPNFDDEDAESIRKDLMTYINSKNQYGAMYGPKASTKGITINKVMYRTNED |
| Ga0222714_1000397428 | F041152 | N/A | MNIVDYIVNNWDNLPKSKFDDVIVVIFKEIQNWDEGYGHHTYEGYGVDKDGNVTWCYSSGCSCSGTPQTEIKKDLKTFIVDDGIDLNVDPSTIDFNSLEVEFNSY |
| Ga0222714_1000397429 | F009604 | N/A | MINCGCGNEIHPERYALGYKVCLKCGDKSASKQKPYGYVHYGHKTAGSIVITSKKGFDNYSKVSYRMNKGSNMGYASRLSTSF |
| Ga0222714_100039743 | F038644 | N/A | MSSIRITQLPNGPWREYALEAERRGLEKISDCRLSGTDVILIGAIDMIRELNEKITKLESKSE |
| Ga0222714_1000397434 | F020529 | N/A | MFSNYNIWKYCAKYFFILTIGAYLYDVSTRLINQKSDVANLVGTALFAGLFVSSLLILRSDVTKLAKNLKEDKTNE |
| Ga0222714_100039746 | F028095 | N/A | MIEQTYMKLQDKVTRPKLTKEKVNRENKHFKRVVDQYINWCKQGGGYEETRETYEDDIINCLFEFDHDGYYLATFLNENAYIEPDSELVDILDSVQFVAHSLTNEIIGQWTKENFLEIPSDVIGKKVNAKQGYKKYENHYITGIKPETYEVTISDDINKKGGWIIRYEDITIL |
| Ga0222714_100039747 | F000962 | N/A | MNIHVPEEIKNKYPHMEFRGKQRIINDRTVIEAYNHATEQNFYYSFDEDFFWFAGEIPNYKLPKVS |
| Ga0222714_100039748 | F014847 | AGG | MEFESNEEILANTMDCIRNLHEENARLMQEIEQLKEDNKELNRKLKSIQALFL |
| Ga0222714_100039749 | F016528 | N/A | MINNNELFAKILAENPLPYRFGDKVNTNRGIGFISGYNFKEREKLWKFTIRPFGLTNYYTDVETVYGKVE |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |