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 Ga0187217_1040308

Scaffold Ga0187217_1040308


Overview

Basic Information
Taxon OID3300017770 Open in IMG/M
Scaffold IDGa0187217_1040308 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 15 SPOT_SRF_2010-09-15 (version 2)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1642
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Strait → Unclassified → Seawater → Marine Viral Communities From The Oligotrophic San Pedro Time Series (Spot) Site, San Pedro Channel, Ca, Usa

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)33.55Long. (o)-118.4Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F019327Metagenome / Metatranscriptome230Y
F033761Metagenome / Metatranscriptome176Y

Sequences

Protein IDFamilyRBSSequence
Ga0187217_10403082F033761GGAGMTITNNHTYFVLDTVFQNRHKELFDFFEGQGADIEINEDFAGLKTILTSKDKDDYPYDFDPAFETKLDNATGFVLHLKIDDEVVATYAAKKLAIPVFVEAMKEKFSGTYEDVSDMSGQSAYSSCQWVSKDHRGKKLGRILDHLKKHICFDLMKCTNNYAIHKEVLADYHTEHLGYNTTQKLALIPNGDVGGAGEAIDKIYNLTYTTATEWTNKQSDIKALYS
Ga0187217_10403083F019327GGAVTLKHYTLRPTELDSKHISQIHKIIKQVISNKRDEYWKNYEDYSVYGQTAITIGLIDEDVKTFSSIYTRDFYGDGVYRIMNRWLIDDEIRETGGSKTYGGEHRFFDMIHQQIEYVNSLNAKFYFISRQRKNTKWLRWYFDRFNKQYDTDLVVSDKQYMVCNGSEYDCSQTLIYPKDKIVPFKSYK
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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