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_0001064

Scaffold Ga0334989_0001064


Overview

Basic Information
Taxon OID3300033984 Open in IMG/M
Scaffold IDGa0334989_0001064 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)13148
Total Scaffold Genes27 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)17 (62.96%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
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?
F005733Metagenome / Metatranscriptome391Y
F025483Metagenome / Metatranscriptome201Y
F040401Metagenome / Metatranscriptome162Y
F040478Metagenome / Metatranscriptome161Y

Sequences

Protein IDFamilyRBSSequence
Ga0334989_0001064_1139_1279F005733GAGGMEHIGGFMRSHYIAPSGVCSRRISLADAMVIAIAVGQNTTQNTTFS
Ga0334989_0001064_1529_1813F040401N/AVNKKRTQKYGHLPPKIVISTPWEALCVDLVGPYTLKGKDGLSIDFMALTMINPASSWFKVVELPTITRVMTKKVNGKERTIEEEIFDKSSDQIS
Ga0334989_0001064_373_585F025483AGGAMMRTSELDMADSVEPADIDTFIDNAAWAIRSTYHTVFKASPGAAIFGQDMLFDIPFVADWKQIGDYATPD
Ga0334989_0001064_4516_5187F040478N/AMETLNKYLGILPTIKNSPLFVASTESGNIPFTEATTHASIILSHLPVAWRHQYGLMHKTVPESPCGMLLDLENIKKLFVERYNEKARANKAKAATAPKSDDHVPRKRTREGGSGKGGAPQKGRSAKYCKWCKAADGPYATHDTIECCRNLKDGSPKDKPTKPWKTWKKTGNGDFSQMAYLTEKLVKNSKRSLRNPRRVRGVLVTRRIVIPTVTRMMGPVAHKI
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