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 Ga0136642_1006256

Scaffold Ga0136642_1006256


Overview

Basic Information
Taxon OID3300013285 Open in IMG/M
Scaffold IDGa0136642_1006256 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lower Cathedral Lake, Yosemite National Park, California, USA - 13028-31Y
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3981
Total Scaffold Genes14 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)11 (78.57%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lake → Unclassified → Freshwater → Freshwater Microbial Communities From High-Altitude Lakes In Yosemite National Park, California, Usa

Source Dataset Sampling Location
Location NameUSA: Lower Cathedral Lake, Yosemite National Park, California, USA
CoordinatesLat. (o)37.8453Long. (o)-119.4233Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001008Metagenome / Metatranscriptome807Y
F011276Metagenome292Y
F017266Metagenome241Y
F034176Metagenome / Metatranscriptome175Y

Sequences

Protein IDFamilyRBSSequence
Ga0136642_100625612F017266AGTAGGMGKSYVNSIMQGWYASMREKYTPTIKWQRLPGFKLQAYTDDVAPRGYERGLNESDMDPIQSWSIECRCGERMSFNVWQFKSEKHITMFLMKWAS*
Ga0136642_100625614F034176AGGTGGMRHNYTKQRDSDEDLEYFISKFECRIEDSREYNQYVKPMPYYRDVCASDDWRLETKITPMKAIHLTSDNLARLVAEQERMEHMKSNAEQGIRMWDQQCKDQMVRDNNPAVDKAYQ
Ga0136642_10062564F001008GAGMSKAKHKPYQWIDGETADRITSLNLKDYRAYLKKELKQWKKNPKSDSNPDGVWMHPGDVGLNVQTIAALDLIISHFVTTEDDIK*
Ga0136642_10062567F011276GGAGMIKGLMGTGGLTVNGGNVSLPYISPNASNPVHGMIRINNTDFEVFNGTSWQQLPSSYATVSLDQDTQDLLQWARTQRQLEQNRATLIENNPALENAYRAVLRAEANFDILSKFVENDLDAELRELAP*
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