NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0180059_1196434

Scaffold Ga0180059_1196434


Overview

Basic Information
Taxon OID3300016695 Open in IMG/M
Scaffold IDGa0180059_1196434 Open in IMG/M
Source Dataset NameEutrophic lake water microbial communities from Lake Mendota, Wisconsin, USA - GEODES164 metaT (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2977
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lake → Unclassified → Freshwater → Freshwater Microbial Communities From Oligotrophic, Dystrophic, And Eutrophic Lakes In Wisonsin, Usa

Source Dataset Sampling Location
Location NameUSA: Madison
CoordinatesLat. (o)43.099Long. (o)-89.405Alt. (m)Depth (m)7
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F006051Metagenome / Metatranscriptome382Y
F015168Metagenome / Metatranscriptome257N

Sequences

Protein IDFamilyRBSSequence
Ga0180059_11964341F015168AGGAMSRQLIVGNQGRTHQVGAYQGSFRGRERIAYQDLPSIHEIEQILEQLTANITLRTEDIPNRPITLPPIYTELSEIDVYTEMARLDLQYDDLRTDKPRTASLARLCKALCIGRYIALGNQPPLQYKSWALVCPMNFENPDMPHGEQSHLAVDNSTKFIIKSMKHRDTIKDASGKTGHMIIPELYHYNNCMCASDCIANNQESLHFLRICAPRSLRQQYAEADHLPDARNAVSIGKKYGNSHTVYYSSVSVSGTVTPQMICRQPITELTRKSPIFRTPQYSHVDMSNDLHLIRAIGACLSRQEIHQYTKNFTESCKMDETTEETGNLYRFPKMNRNRQNTDILSLNPSYNSLDQALANEPLVEPFMGPQACPYCPTILQITEPKDYLLHLFDHHAILTEAYFTCPGCIAICIFNKETYPAHYTEVHSQASALIIMFTETATHIRTQQALQLSLFIEVTLRLESFYPAEKQNKEPHYVSYLGGYSSNKKALFREVQNEQIKRNPLDLMHQMEETLSADFTTTEEIFNIQRPSSPIFLKLLKQIKNNESYSEKTKQRTTFEEKETEKDTRTDRQPRQQN
Ga0180059_11964342F006051GAGMGRFVDATRCHILEKYMSSYMRERNVDALLVLRNENKWAMTGKYLTFSFHNFIS
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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