NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
x
This website uses cookies to improve user experience. By using NMPFamDB you consent to all cookies in accordance with our privacy policy. OK
Scaffold Ga0335070_10018734

Scaffold Ga0335070_10018734


Overview

Basic Information
Taxon OID3300032829 Open in IMG/M
Scaffold IDGa0335070_10018734 Open in IMG/M
Source Dataset NameSoil microbial communities from Loxahatchee National Wildlife Refuge, Florida, United States - Lox_Sample_1.3
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)8028
Total Scaffold Genes15 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)14 (93.33%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Wetlands → Unclassified → Soil → Soil Microbial Communities From Loxahatchee National Wildlife Refuge, Florida, United States

Source Dataset Sampling Location
Location NameUSA: Florida
CoordinatesLat. (o)26.5008Long. (o)-80.2398Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000042Metagenome / Metatranscriptome3762Y
F000309Metagenome / Metatranscriptome1327Y
F000828Metagenome / Metatranscriptome872Y
F010187Metagenome / Metatranscriptome307Y
F012059Metagenome / Metatranscriptome284Y
F018587Metagenome / Metatranscriptome234Y

Sequences

Protein IDFamilyRBSSequence
Ga0335070_100187341F000042AGGAMKNIKFVIRVSRVGPRAPEYVKRIDRTPIQMTSHRKLALVMGRFTAEDVVKSIQNSRCSPELVPVQVNA
Ga0335070_1001873410F018587AGAAGMDPVLHPFLVRLRSLRAFIGASLRKLLGMEPRDGDFASQRMCPFCGLITPRYETFCLECGKSLKPA
Ga0335070_100187344F000828N/AMAQMKETQRSIFEEHYRVVAVESDRLLVRGILSGKVLTIINPEPKTPLTQEDYPPGKLIALTDPLTAPLN
Ga0335070_100187345F000309GGAGMTPKKNQSLERVLESAIVVSWADLMRGAQSGLIHIEYGFAPSGTLDYLQVWSSITRNHWLLACSYWMSASKFHETGIHFDNGYQSEGLAHILESVMQHQTAFSLPADLGRQGLLQITTPTEDESSAAAASVSEALDGFGSLLAQPALA
Ga0335070_100187347F010187AGGGGGMHREDLLSPDLLSEIVLLGSGTLIFVSLLLIVVTAVTRA
Ga0335070_100187348F012059GGAMKKQYLHLSTYSCDNCKGPVVSGWLAVRENEISKETEIRQVGAICLSCGHRQSKMTEPGITRHFPPVEWESVTLVDVSHLATAFEEMLGRAP
 ⦗Top⦘



Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
© Pavlopoulos Lab, Bioinformatics & Integrative Biology | B.S.R.C. "Alexander Fleming" | Privacy Notice
Make sure JavaScript is enabled in your browser settings to achieve functionality.