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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300005531 Open in IMG/M |
| Scaffold ID | Ga0070738_10001165 Open in IMG/M |
| Source Dataset Name | Surface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen12_06102014_R2 |
| 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) | 58193 |
| Total Scaffold Genes | 66 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 54 (81.82%) |
| Novel Protein Genes | 8 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 7 (87.50%) |
| Associated Families | 8 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria | (Source: IMG/M) |
| Source Dataset Ecosystem |
|---|
| Environmental → Terrestrial → Soil → Unclassified → Unclassified → Surface Soil → Surface Soil Microbial Communities From Centralia Pennsylvania, Which Are Recovering From An Underground Coalmine Fire. |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: Pennsylvania, Centralia | |||||||
| Coordinates | Lat. (o) | 40.7999 | Long. (o) | -76.3402 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F001527 | Metagenome / Metatranscriptome | 678 | Y |
| F013999 | Metagenome / Metatranscriptome | 266 | Y |
| F017111 | Metagenome | 242 | Y |
| F018762 | Metagenome | 233 | Y |
| F050488 | Metagenome / Metatranscriptome | 145 | Y |
| F055628 | Metagenome / Metatranscriptome | 138 | Y |
| F085449 | Metagenome | 111 | N |
| F092401 | Metagenome / Metatranscriptome | 107 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0070738_1000116510 | F013999 | AGGAGG | MFRIVSRKRQIELRRFGRPIGSAVATLLLSSPAFAQFGGDRVTSFLSNALGYAQGLGIFGAGFLVIWAIANIARERPSGKQWAGAGGALLLSSVLQLLRTFAG* |
| Ga0070738_1000116518 | F085449 | GGA | MVSGAAPSSFRLNSVDRHGRQIDPSVLAAAETIFPKALDYGQSLLGDLAVIANTLEEVAANVSQRMARRDSSGEPEAIRNLPGYVFRAFVREVNRLKNKELAVLDAAVEGQTLAQRLADPARQLEMKVLVKECLARFDFTERDMCWRRLEGFTWDEIGPVHELSAHAAEVRFRNAVRAVKAKLVRSRKPLPPTAQTAQNEQLMPAMEADDDERKT* |
| Ga0070738_1000116520 | F055628 | GGAG | MLNKRLWLLLPILSLAIVSAAGCLSRSNVSGVWKGSIESTDKRGHKWQGPAELTLNQNGGAITGTLVFTPPQAGRVQVPITSGVVSKDSLTFSGQNNLPMASVEITFHGSVSGTTLSGTADMTSRSVILGPATETASLSLQKQ* |
| Ga0070738_100011655 | F017111 | AGGAG | MTTIPLTLEETQKAKSELGDYTEFYSHLAMQTRRASRVALVACAVALISIVSAILAQLRPPILLRVQDGKVSSLDGSDVQVAQTAVQQQPDNAEKLSFVNTFLSRFVNIDPLTVKRDTTLALNQMTYTLRQQILAQLNQENFVDTVRQNNVTSTLAVKSAELVSGDPYTAIVFGRKRLTTLINGQENEKNLLVKYTIRLAPVARSAANGWAGLEIADYKEEVLQP* |
| Ga0070738_1000116550 | F092401 | AGGA | MPFSGNCHSFDSSTLDSSTLKALNDVGMVYGLFKEDLPFRPDHYTCLFVGQTNNLRARLLEHYSNRSIAGVTHFFAETSATEQQQKLREKELIAEFNPSGNKN* |
| Ga0070738_1000116551 | F050488 | N/A | VCGVAERSEGEGNRVVEDSWNTHIDYLEDEVKKIDERAGRLEVTIADLENEQKKHALRELVQHLRDAAKEHRKYLALVKRK* |
| Ga0070738_1000116562 | F001527 | AGGAG | MIVTSVDILGRHLKPLCSRDNRVMKYESGGSKANTGDRASYHCGVEGCSVRYSSTDGYYMLIGMPDHANPVAEPGVNTARCPIHGRWLYRRLNVDAGPGVGWSCGVEGCDYGHNANTKGDWVRS* |
| Ga0070738_100011657 | F018762 | AGGA | MRQHSRKFVFLALTTALALIVPITAHAFIGTMPVIDWTAVVRIGRQIGISQETLNTLGLYVQQYNRVNAGVQEGIRLSRGRQLQGVLNQVVGSQFPQFQQLQRDFNGVLVDPSILRGDLELTYGATPSTDFPISRKKRIDAADATATLGLLEASRAEMVSQQEELDADDIESRAALSSPGGAAKLSAAANGAMLRSQAYDQRLLARLMRLQALNIARDNSLEKEQEQVRQAQLTTVSNMVGGMRLSYGIGDKVGQ* |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |