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 Ga0335065_0004888

Scaffold Ga0335065_0004888


Overview

Basic Information
Taxon OID3300034200 Open in IMG/M
Scaffold IDGa0335065_0004888 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME18Jul2013-rr0190
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)9490
Total Scaffold Genes21 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)14 (66.67%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage(Source: UniRef50)

Ecosystem & Geography

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 NameUSA: Wisconsin
CoordinatesLat. (o)43.0995Long. (o)-89.4045Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000369Metagenome / Metatranscriptome1222Y
F013888Metagenome / Metatranscriptome267Y

Sequences

Protein IDFamilyRBSSequence
Ga0335065_0004888_2975_3511F000369AGAAGMSDIEPAVHFDRMNKVVEELLKGNSATQIAAATGFSRKEVLEFIDEWKTVVHNDSNIRDRAREAISGADQHYAMLIKEAWKTVEDADQSGQLSVKAGALKLIADIETKRIAMLQSVGVLENTQIASQIAETERKQEILVGILKEVTASCPKCKMDVAKRLSQITGVVEAIVIQDADVV
Ga0335065_0004888_3871_4530F013888AGAAGGMATIGLLPASGKASRVGGIPKFCLPISDERSLIQWHVEQMLEVCDEVRISTRAEWVPIIQNMDMNIKLIVREPSTMSDAVNFMVGESNDTVLIGMPDTFILGSPNNIYKEMVKSSGDLVLGAWECTEDLKGRVGQIHLSGDKVVYSKDKVDDCDYSYMWGTMLFRKNLIRYVDSSLDHPGKQIQEWIDMNLDVRAVKPGGQYMDIGTLKGLKRLYKEME
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