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 Ga0334989_0008511

Scaffold Ga0334989_0008511


Overview

Basic Information
Taxon OID3300033984 Open in IMG/M
Scaffold IDGa0334989_0008511 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME13Mar2001-rr0030
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5217
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (27.27%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Thalassiosiraceae → Thalassiosira → Thalassiosira pseudonana(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?
F000211Metagenome / Metatranscriptome1583Y
F001307Metagenome / Metatranscriptome726Y
F040401Metagenome / Metatranscriptome162Y
F050782Metagenome / Metatranscriptome145Y

Sequences

Protein IDFamilyRBSSequence
Ga0334989_0008511_1947_2264F040401N/AVNEKRTPMYGHLPSKIEISTPWEALCVNLVCPYTLKVKVGLSIDFMALTMTDPTSAELPFIIRLMTKTVKEKERIIEEEIFDKSSDRISRLVNKIWLFRFPDANI
Ga0334989_0008511_2709_2852F050782N/AMGYASSADIFQAEMMNIMEALEYVRAYIYDLLVITKGTLALPRRPFR
Ga0334989_0008511_3606_3770F000211N/AMSYIYMVFEHLKQLWRGIWQHTHTITTTEVSPDLGELAEILDDVSVEMIPLHYP
Ga0334989_0008511_3820_3969F000211N/AMVFEHLKQLWMGIWQHTHTVTTTEVSPDLGELAEILGDVSVEMIPLHYR
Ga0334989_0008511_4043_4168F001307N/AMWMGIWQHTHTITTTEVSPDLGELAEILDDISVEMIPLRYR
Ga0334989_0008511_4247_4366F001307N/AMGIWQHTYTITTTEVSPDLGELAEILGDVSVEIIPLCYR
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