The Actinobacteriophage Database

Mycobacterium phage Rakim

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Detailed Information for Phage Rakim
Discovery Information
Isolation Host	Mycobacterium smegmatis mc²155
Found By	Lucia Barker
Year Found	2008
Location Found	Ashburn, VA USA
Finding Institution	Howard Hughes Medical Institute
Program	Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science
From enriched soil sample?	Yes
Isolation Temperature	Not entered
GPS Coordinates	39.069783 N, 77.463 W Map
Discovery Notes	Phage was originally named "Napoleon", but renamed because that name was taken.
Sequencing Information
Sequencing Complete?	Yes
Date Sequencing Completed	Feb 3, 2011
Genome length (bp)	75706
Character of genome ends	3' Sticky Overhang
Overhang Length	9 bases
Overhang Sequence	CGCTTGTCA
GC Content	62.9%
Fasta file available?	Yes: Download fasta file
Characterization
Cluster	E
Subcluster	--
Cluster Life Cycle	Temperate
Other Cluster Members	Click to View 244 ABCat Adnama Amao AmericanBeauty Argent26 Asriel BaboJay BadStone Balomoji Barbarian Bask21 Bench BigBubba BilboSwaggins Bruin Buck Cactus ChosenOne ChotaBhai Cjw1 Command613 Contagion Cookies CrystalP Czyszczon1 Daikon DoctorDiddles DrDrey Dumbo Dusk Easy2Say Elite2014 Elph10 Emmina Eureka Filch FireRed Flypotenuse Gage Gator Gemini Glexan Goku GoldenSpark Goldilocks GooberAzure HanKaySha Harella Henry Highbury Holt Hoonter Hopey HufflyPuff Icee IHOP Inca JeTaime Kanye Kimchi Kostya Lilac Lilizi Lilpickle MadamMonkfish Manda Marshmallow Maxxinista Mindy Miniwave Misfit MISSy Moldemort Mosby MPhalcon Murica Murphy Myrale Nala NelitzaMV Nimrod NoSleep OrionPax Paperbeatsrock Pat3 Petra64142 Phaja Pharsalus PhatBacter Phaux Phrux Policronamos Porky Pumpkin Quallification Rakim Rimmer RiverMonster Saints25 Sassay ShamWow ShereKhan Simpliphy SirDuracell SophKB Sotrice96 Stank Stark StellaBean StolenFromERC Tarkin TBrady12 TeardropMSU Teaspoon Terminus Thresher Tomaszewski Toto Traaww1 Tuco Ukulele Wiggin Willez Xandras xkcd YassJohnny Youngblood
Annotating Institution	Unknown or unassigned
Annotation Status	In GenBank
Plaque Notes	Bullseye plaques, vary in size
Morphotype	Siphoviridae
Number of Genes	142
Number of tRNAs	2
Has been Phamerated?	Yes
Gene List	Click to View Rakim_1 Rakim_2 Rakim_3 Rakim_4 Rakim_5 Rakim_6 (terminase small subunit) Rakim_7 Rakim_8 Rakim_9 Rakim_10 (terminase large subunit) Rakim_11 Rakim_12 (portal protein) Rakim_13 (capsid maturation protease) Rakim_14 (major capsid protein) Rakim_15 Rakim_16 (head-to-tail adaptor) Rakim_17 (head-to-tail stopper) Rakim_18 Rakim_19 (tail terminator) Rakim_20 (major tail subunit) Rakim_21 (tail assembly chaperone) Rakim_22 (tail assembly chaperone) Rakim_23 (tape measure protein) Rakim_24 (minor tail protein) Rakim_25 (minor tail protein) Rakim_26 (minor tail protein) Rakim_27 (minor tail protein) Rakim_28 (minor tail protein) Rakim_29 Rakim_30 Rakim_31 Rakim_32 Rakim_33 (lysin A) Rakim_34 (holin) Rakim_35 Rakim_36 (lysin B) Rakim_37 Rakim_38 (NrdH) Rakim_39 (Lsr2) Rakim_40 Rakim_41 Rakim_42 Rakim_43 Rakim_44 Rakim_45 Rakim_46 Rakim_47 Rakim_48 Rakim_49 Rakim_50 Rakim_51 Rakim_52 Rakim_53 Rakim_54 (tyrosine integrase) Rakim_55 Rakim_56 Rakim_57 Rakim_58 Rakim_59 Rakim_60 Rakim_61 Rakim_62 Rakim_63 Rakim_64 Rakim_65 Rakim_66 Rakim_67 Rakim_68 Rakim_69 Rakim_70 (ssDNA binding protein, ERF family) Rakim_71 Rakim_72 Rakim_73 Rakim_74 Rakim_75 Rakim_76 Rakim_77 Rakim_78 Rakim_79 Rakim_80 Rakim_81 Rakim_82 (DnaB) Rakim_83 Rakim_84 (WhiB family transcription factor) Rakim_85 Rakim_86 Rakim_87 Rakim_88 Rakim_89 (polynucleotide kinase) Rakim_90 Rakim_91 Rakim_92 (RNA ligase) Rakim_93 Rakim_94 (WhiB family transcription factor) Rakim_95 Rakim_96 Rakim_97 Rakim_98 Rakim_99 Rakim_100 (endonuclease VII) Rakim_101 (single-stranded DNA-binding protein) Rakim_102 (ClpP-like protease) Rakim_103 Rakim_104 Rakim_105 Rakim_106 Rakim_107 Rakim_110 Rakim_111 Rakim_112 Rakim_113 Rakim_114 Rakim_115 (DnaQ-like DNA polymerase III subunit) Rakim_116 Rakim_117 (RecA-like DNA recombinase) Rakim_118 Rakim_119 Rakim_120 Rakim_121 Rakim_122 Rakim_123 Rakim_124 Rakim_125 Rakim_126 Rakim_127 Rakim_128 Rakim_129 Rakim_130 (ParB-like nuclease domain protein) Rakim_131 Rakim_132 Rakim_133 Rakim_134 Rakim_135 Rakim_136 Rakim_137 Rakim_138 Rakim_139 Rakim_140 Rakim_141 Rakim_142 Rakim_143 Rakim_144 Rakim_145 Rakim_146 Rakim_147
Publication Info
Uploaded to GenBank?	Yes
GenBank Accession	JN006062
Refseq Number	None yet
Published in Paper	Pope, Bowman, Russell, et al 2015, eLIFE: Whole genome comparison of a large collection of mycobacteriophages reveals a continuum of phage genetic diversity
Archiving Info
Archiving status	Archived
SEA Designator	2008HHMIRakimKWB
SEA Lysate Titer	3.9e9
Pitt Freezer Box#	3
Pitt Freezer Box Grid#	F2
Available Files
Plaque Picture	Download
Restriction Digest Picture	Download
EM Picture	Download

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