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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300034061 Open in IMG/M |
| Scaffold ID | Ga0334987_0000808 Open in IMG/M |
| Source Dataset Name | Freshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME02Sep2004-rr0028 |
| 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) | 29696 |
| Total Scaffold Genes | 60 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 19 (31.67%) |
| Novel Protein Genes | 12 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 3 (25.00%) |
| Associated Families | 12 |
| Taxonomy | |
|---|---|
| Not Available | (Source: ) |
| Source Dataset Ecosystem |
|---|
| Environmental → Aquatic → Freshwater → Lake → Unclassified → Freshwater → Freshwater Microbial Communities From Lake Mendota, Crystal Bog Lake, And Trout Bog Lake In Wisconsin, United States |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: Wisconsin | |||||||
| Coordinates | Lat. (o) | 43.0995 | Long. (o) | -89.4045 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F001120 | Metagenome / Metatranscriptome | 772 | Y |
| F001807 | Metagenome / Metatranscriptome | 631 | Y |
| F007026 | Metagenome | 359 | Y |
| F015587 | Metagenome | 253 | Y |
| F019817 | Metagenome | 227 | Y |
| F020342 | Metagenome / Metatranscriptome | 224 | Y |
| F025487 | Metagenome | 201 | Y |
| F029735 | Metagenome | 187 | Y |
| F056536 | Metagenome | 137 | N |
| F056537 | Metagenome | 137 | Y |
| F087066 | Metagenome | 110 | Y |
| F099220 | Metagenome / Metatranscriptome | 103 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0334987_0000808_11984_12232 | F056536 | N/A | MLCYYPYEGATERITWHGGESTMLHYQVQVDDYKGDPDWIDRYSQTLGGGIPCGTKELLAAMSDYYQYISQLHLDTMAGTIF |
| Ga0334987_0000808_12326_12514 | F015587 | N/A | MTKLNIRKNIAAALFNTAVAIDNAKLPTKEDIGTKVNEYRLRAAALMMPNDMAFVIQPKQGN |
| Ga0334987_0000808_16086_16328 | F019817 | N/A | MQATATPALSINQRNLYAYYLNHKKKYGNTPCFVPKLPSQSSRLEQYLQALVRLEEYGLIRVDRSSANYTAWIMLAPKST |
| Ga0334987_0000808_16903_17190 | F007026 | N/A | MEQAKKYPAIDWTKNEYHQLQLVVDALKAICAREDKRHQMDEHLDPHMRNVIDEVIGMLSDELDYDPTPNEPGEPPMTMNEMHSAAWKEHQEMHR |
| Ga0334987_0000808_17555_17749 | F001120 | N/A | MKKSHVSFDKTIGGFNVTERGVRSYSKSIKLGPLQVTLNARESGVRGTISIPGTGLSLPNIKLI |
| Ga0334987_0000808_17978_18163 | F020342 | N/A | MSAYVDYLNMFDRINLAACAKRRATDNLLDSNRWEGEYDTARLWMKYRLIKTTTHSYIDE |
| Ga0334987_0000808_18163_18423 | F001807 | N/A | MTVLAIENIVFGDHDATVTAVVDDMRLLYRATRFEPEEWAPALCTTTIELDPEEPIPLDEDGFCSYLDDLDPHWQLVDTSDYDLDS |
| Ga0334987_0000808_21199_21516 | F025487 | GGGGG | MTHDTIDLDLVDKTIALIPGHAWTQVRQAIVTALVDNMPGSVIQHLTGSYDNFDRAEEILYDYYELPALSHELIADAFKIMGEVNCLELLHSLNLTEDELQTMQQ |
| Ga0334987_0000808_22871_23080 | F087066 | GGAG | MTENQIQFLRGSCVTILAFASTGLIAAIFLSPDEPKNNSKFEVIDQYEGCSVIRYTDPTSRWHYFLKCS |
| Ga0334987_0000808_25069_25284 | F056537 | GAG | MVNDIVYINRHILSVSIDTKAMTLTYRGCKYNQEDQAKADRAWWNLAHRPWLCLTYRNICYFPYVTGGQIK |
| Ga0334987_0000808_5622_6200 | F029735 | N/A | MAKDHRLALDRYIDYTKDPFLKKRQVNFDDSFASKPSSGAAPWMPSRFEQSDLLRRIQTRKLALNPGLNFVGNTPEEYEVFADIGRFVRNESYDFNEGRALTTLRPEDQPGFSPVWVEAYRISPTVNPDKRASNPMPRMANPDPKGYMMASAEKRALDEMEDNKSVAQLLDKPSAEDSKETFKKNNEKPGKA |
| Ga0334987_0000808_655_960 | F099220 | N/A | MAYTTRDYLANPVQRAGDRTNFRATKEQLMGEGMSEPEAQALADEITSRKYGGGMSNAELQDFETLIGRLEQSKMKQAAQGNRARQRDVMAGGLASMMTNF |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |