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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300020568 Open in IMG/M |
| Scaffold ID | Ga0208598_1000590 Open in IMG/M |
| Source Dataset Name | Freshwater microbial communities from Lake Mendota, WI - 22JUN2012 deep hole epilimnion (SPAdes) |
| 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) | 9712 |
| Total Scaffold Genes | 24 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 3 (12.50%) |
| Novel Protein Genes | 8 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 1 (12.50%) |
| Associated Families | 8 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Environmental → Aquatic → Freshwater → Lentic → Epilimnion → Freshwater → Freshwater Microbial Communities From Lake Mendota And Trout Bog Lake, Wisconsin, Usa |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | Lake Mendota, Madison, Wisconsin, USA | |||||||
| Coordinates | Lat. (o) | 43.098333 | Long. (o) | -89.405278 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000710 | Metagenome / Metatranscriptome | 925 | Y |
| F002287 | Metagenome / Metatranscriptome | 574 | Y |
| F004838 | Metagenome / Metatranscriptome | 421 | Y |
| F035741 | Metagenome / Metatranscriptome | 171 | N |
| F041161 | Metagenome / Metatranscriptome | 160 | N |
| F067260 | Metagenome | 126 | N |
| F083616 | Metagenome | 112 | N |
| F083794 | Metagenome | 112 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0208598_100059016 | F041161 | N/A | MSRQIADSIEFANDFLPKHTTCQEIWYILKDNFIYKNDPPGIELLQSFPSLMEDNYWGIPGAGDCDCFTIAALACARARNIPARAVIVGNSSQAPTHIYCQLFDGSKFIDFDLVSSSYGTTKAYKNKQIIKLH |
| Ga0208598_100059017 | F083616 | N/A | MFLQLHDGPDLPYGTSRYPYPKRSGPMMPVRYAEDPFAPGSPVMQTTPYRLLSGCDQTQVYADFVPQNANGWKVRLDQVSSGQKLVKDYQTLRAAKGTGSAPIYSADGTITGFQQASKAQEVAAYIELGLKALRLAQTGVQAGEARRLKEDAQKLYNENKWGIADVCNQTLVQLQNNAQNCYDSLNWWIKDQGTPGKSAGQKRIANRSVVIRQNALLILVKEIEAKGGSFTPGGKGAPVGIAAILALVAGAAFLRF |
| Ga0208598_10005902 | F083794 | N/A | MTATQATKQLLDMGCVFLSIVDIEGNTIVPKQQNKFTTPADIKKQADKINTYLKTAPNGTYVIEGRIGGTSKPTQIVIDKGEAAPAIAVNNSAPSRGISDPGAESVLSYRAALDMQNQIATLTAENNRLRDLVEALEGDLADIEEAQPEQMAESPAMGALGQLAAILPAVVDKWFENQKENREIEKAKLYQAAQARQAQAQYQSNGSSDYDSF |
| Ga0208598_100059021 | F004838 | N/A | MALSAQDKILYVANKLGLSSLNLMQGSTGAVYDVDTDISGQIFTSASRHQNPSVTNLTQNEFEVNEALLVENIAFYVKNAAGNTLNFQAVYGSNAIIVFDLVIGNKRVMKDTPVFASGSPYTFANTGNATFTSGEAVVQGLIPRHQIFMEGAGVLIPPQVQWYVDYRIFNVVTGATIAATDDTTIGCYLFGTRVLLNFNTSI |
| Ga0208598_100059022 | F002287 | N/A | MSQISKLGYVDSKLGAPSSGQQTTRILFNTIEAPGTTSSLTFFKTFQGLTQGQTNLTQNKLDSMESMVIKTIWLGQYNTAGDLAEVGALRQQTVSIIVGNQTVVKNLPIQFNQGTNGQAFDRLHENGGADSDLNTPATALYQRIMPVEIRLLTDIVIPPQVAFEVRLDSNQGVYGTGAIVCALSGYGKIFSAGNTF |
| Ga0208598_100059023 | F000710 | N/A | MASSMDISYRQGIRSKGFAITTPTGVTQQTLSLSGLAKSFEGILLTSAFTATPATIINPKQLRVTLTINNDVVIDDDVAVHYASPATGGFSGGFPFFIPIPRRLTGQDTIQIRFTNAAASQNVDVTVWYRNEL |
| Ga0208598_10005903 | F067260 | AGCAG | MTHFDKVVDPDLKRCETPEQMLQVLMYHYDLNCKLGTITSLAFRQGLKTAVNMIAAKAKSQSSALQN |
| Ga0208598_10005906 | F035741 | N/A | MTANDVIGKYLIAEQNVPLFAFPGGSQIGVVNTGLVVGPVYSWIEKNNKLYWQFDYTIPGNAPGSYYAEHRPEFWKLSTTGSGGGAINLPGTTSLIPKWALPVALGALALFLFK |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |