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 Ga0335001_0000178

Scaffold Ga0335001_0000178


Overview

Basic Information
Taxon OID3300034064 Open in IMG/M
Scaffold IDGa0335001_0000178 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME14Nov2013-rr0054
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)33945
Total Scaffold Genes64 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)22 (34.38%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Associated Families5

Taxonomy
Not Available(Source: )

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?
F031848Metagenome / Metatranscriptome181N
F046179Metagenome151Y
F056323Metagenome137Y
F072111Metagenome121N
F098930Metagenome103N

Sequences

Protein IDFamilyRBSSequence
Ga0335001_0000178_12473_12811F098930N/AMNESLEKQPSNRKLNQKRKFGFGSGRKRNQLQDKKINIRVSLSVETFKRVDSLAKRIDCSLSSAVERLIRTQESEGIEPTQEVNWDEFKAKRQFYQLTDVLDASFRRRGRRA
Ga0335001_0000178_15747_15959F031848N/AMELLFNDLPEELSPRLKWQEKKGIKTMRRDDGKYVAYKTETRFNNSDETEVDAVIGLAKKLKLKLWSEEN
Ga0335001_0000178_18447_18641F056323N/AMIRLFSLHEIAEDLKLPPAVVALWAADGMIPHTMRDGLPLFDPVAVGKHIAEQLNNLNKYDDEA
Ga0335001_0000178_18991_19200F072111GAGMEKGGGRMKSQVTLAIAIFAHLALFLFVDSSFEGSSKWKMWAFYGSSLLSVAVWAAYVVNDDLDGGGAA
Ga0335001_0000178_19425_19739F046179GGAGGMSRPQWETQALALITGAGVSVDDAPWVLECIQKAVDDIAEHEDADQFPLYMEYHGNDKAALCNIDAETFADVLACLGVDLHRLETLWERKHLDPPTDEADWSLE
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