 |
Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300025732 Open in IMG/M |
| Scaffold ID | Ga0208784_1000054 Open in IMG/M |
| Source Dataset Name | Aqueous microbial communities from the Delaware River and Bay under freshwater to marine salinity gradient to study organic matter cycling in a time-series - DEBay_Sum_0.19_N_>0.8_DNA (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) | 49381 |
| Total Scaffold Genes | 63 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 17 (26.98%) |
| Novel Protein Genes | 6 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 0 (0.00%) |
| Associated Families | 6 |
| Taxonomy | |
|---|---|
| Not Available | (Source: ) |
| Source Dataset Ecosystem |
|---|
| Environmental → Aquatic → Marine → Coastal → Unclassified → Aqueous → Aqueous Microbial Communities From The Delaware River/Bay And Chesapeake Bay Under Freshwater To Marine Salinity Gradient To Study Organic Matter Cycling In A Time-Series |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: Delaware Bay | |||||||
| Coordinates | Lat. (o) | 39.283 | Long. (o) | -75.3633 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F017470 | Metagenome | 240 | Y |
| F027440 | Metagenome / Metatranscriptome | 194 | N |
| F037195 | Metagenome | 168 | N |
| F059910 | Metagenome / Metatranscriptome | 133 | N |
| F067673 | Metagenome | 125 | N |
| F079983 | Metagenome / Metatranscriptome | 115 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0208784_100005417 | F027440 | N/A | MSTKNLELVASFAGSVFQSDTDGNPIFTTAERHVRKTAKSPERIVSFQKPVLAVSDLQYWVKRGEALAEIPTEHVTKVKNEDGSVTETKRISNALSDLVSEHLLDISEDASEAYLSKGNTPDYFAAFIYGVSADRETEKSVLKKIESIRSEIGSIVFALAGEWSDDIARSLNVSDKDAAIAKQSNLIASLAQLLAKANELSAAKAKREAKKAAKV |
| Ga0208784_100005429 | F037195 | N/A | MNIFNQQPQPQLDPTALLKQAESLLNKTERKQGWPYYDIKHAVQFAQLVVKLSKIPSKKATINSLTLRQQPQTIRARLSQGKAFLTDKGTAVLQGAIDPDDIPIVDELKEKVQISVRKVNLIIELVEPVDNILDAMTPLMGGTDEDPTTFNEDVFREEIVEFMNSGEVGSQASWQNYTSSAEKFARQLAMQDNTIIIETTPTELIVMKMSEEMLKGLE |
| Ga0208784_10000543 | F079983 | N/A | MPATWDLPRSSGLWNQQDIANYNRLPIWMAIQQTKKMQMWSRWKDMFPKIKWKQNMGDILQGVIAENSPIVNQVHRPKNITELPLKTVASTWERTNQSRVKRHNFESPQFNFLPSFRDFRTKQLKFAAEDLSKQIAVGYDFFTRDNVFQNSPFVYIVGNTTAGELPLVNAPAALPTDTSAIKDTAWVAAAAAKIGSDDNGFLSYRQIQAVASYAKNYLMIPPMEGMQSGAPADNEMSKGKYVLLGGSEIYEGLAFDTHVLNTKPLAMNLLNSSFQGAIGPNIIFREEFYPLRFAEDGTMPAPEIELLLPDSGYSTPNATRQTVINPAYAAAPIGVAFLIGYNAYEQIDVGPPPSEFTGASINGKRFNQLTWNGEVRLTDNVLVNYGSNNLDTNKYGEFLQLIADTVLGIIGNTNRNVIPIIYRRQIAPSLFV |
| Ga0208784_100005438 | F059910 | N/A | MKKGTEVKIGFIPANVYKVLVHKTETRQSAKGFKMVVCECEIIAPETAVAAGVTYKTLGSKGNMYIMLENKNGVDSALELLASSLQTIGLYDGLPDDYTDVDVADALASLQGQAFNMLVQSQPEYVTDDPSNSRDLKFAKRDENGEAIVKRYNTQFDFSQVKGAASPLANNF |
| Ga0208784_100005451 | F067673 | N/A | MNSLIQQVSETIGVLPDSRDKEAQVLAWLNRAAVMIYDQYDLPGSVFEQFFCVDNNQHVITFPWYVGSIRGVRWHDSSRLVTTRDMRPRYHAVPWTQPYLQWRQIAPTPLHTPLVNSGLLTFQLTLPETEPFDIIINGQTPQAANVTEIITFAPGDLIKTSVNMFEPESPFGVKSLKKTIFTKSDVVVRQGTTQEEIGRIPNNQLYASNIRVQILDWNASTPFILGEDCVEVLYKQRFSPFVNIDSIWTDERLVQGLVYGVKYIFAMEKEKMDVASVNKDMMEQICRGVCENMESGQELMVQTERHASQDAAIMFPVWPLVQGGVRNLW |
| Ga0208784_10000548 | F017470 | N/A | LASLVLYAFYMSDLMMRNQILGLRRAGMSCEEISAALEVDSMVVRLALEAAGGSAVLRKEALKEEDITDDVSEAEAKEMMGIIKDIARNEESGVYARLNAAKYAHGAKRGYHKRHLDLNVGSGELLLKINEAYASAAMRARAALGGQSLTAKEINVIEAPITVAAELTQESPTDHESPTQSQPAAPKPRPFKL |
| ⦗Top⦘ |
|
Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |