Mycobacterium phage UPIE
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Detailed Information for Phage UPIE
Discovery Information
Isolation HostMycobacterium smegmatis mc²155
Found ByShelby Paulson
Year Found2009
Location FoundCorvallis, OR USA
Finding InstitutionOregon State University
ProgramScience Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science
From enriched soil sample?Unknown
Isolation TemperatureNot entered
GPS Coordinates44.565454 N, 123.275549 W Map
Discovery NotesDamp, dark soil next to plants and a pond next to the Oregon State library. 55°F
Sequencing Information
Sequencing Complete?Yes
Date Sequencing CompletedMar 17, 2011
Sequencing FacilityJoint Genomics Institute
Shotgun Sequencing MethodSanger
Genome length (bp)73784
Character of genome ends3' Sticky Overhang
Overhang Length10 bases
GC Content58.8%
Fasta file available?Yes: Download fasta file
Characterization
ClusterL
SubclusterL1
Cluster Life CycleTemperate
Other Cluster Members
Annotating InstitutionUnknown or unassigned
Annotation StatusIn GenBank
Plaque Notes1-2mm; clear; incubated at 37 ºC usually for 20-24 hours
MorphotypeSiphoviridae
Number of Genes122
Number of tRNAs9
Number of tmRNAs0
Has been Phamerated?Yes
Gene List

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UPIE_1

UPIE_2
(terminase small subunit)

UPIE_3

UPIE_4
(terminase large subunit)

UPIE_5
(portal protein)

UPIE_6

UPIE_7
(scaffolding protein)

UPIE_8
(major capsid protein)

UPIE_9
(head-to-tail adaptor)

UPIE_10
(head-to-tail stopper)

UPIE_11

UPIE_12
(tail terminator)

UPIE_13
(major tail protein)

UPIE_14
(tail assembly chaperone)

UPIE_15
(tail assembly chaperone)

UPIE_16
(tape measure protein)

UPIE_17
(minor tail protein)

UPIE_18
(minor tail protein)

UPIE_19

UPIE_20

UPIE_21

UPIE_22

UPIE_23

UPIE_24

UPIE_25
(lysin A)

UPIE_26
(lysin B)

UPIE_27

UPIE_28

UPIE_29

UPIE_30
(NrdH-like glutaredoxin)

UPIE_31

UPIE_32
(nucleotidyl transferase)

UPIE_33
(Lsr2-like DNA bridging protein)

UPIE_34

UPIE_35

UPIE_36
(tyrosine integrase)

UPIE_37

UPIE_38

UPIE_39

UPIE_40

UPIE_41

UPIE_42

UPIE_43

UPIE_44

UPIE_45

UPIE_46

UPIE_47

UPIE_48

UPIE_49

UPIE_50

UPIE_51

UPIE_52

UPIE_53
(Ro-like RNA binding protein)

UPIE_54

UPIE_55

UPIE_56

UPIE_57

UPIE_58

UPIE_59

UPIE_60

UPIE_61
(ssDNA binding protein, ERF family)

UPIE_62

UPIE_63

UPIE_64

UPIE_65

UPIE_66

UPIE_67
(DnaB-like dsDNA helicase)

UPIE_68
(WhiB family transcription factor)

UPIE_69

UPIE_70

UPIE_71
(phosphoribosyl pyrophosphate transferase)

UPIE_72
(nicotinate ribosyltransferase)

UPIE_73

UPIE_74
(polynucleotide kinase)

UPIE_75

UPIE_76

UPIE_77
(WhiB family transcription factor)

UPIE_78
(WhiB family transcription factor)

UPIE_79

UPIE_80

UPIE_81

UPIE_82

UPIE_83

UPIE_84

UPIE_85
(RNA ligase)

UPIE_86

UPIE_87

UPIE_88

UPIE_89

UPIE_90
(HNH endonuclease)

UPIE_91

UPIE_92

UPIE_93
(DnaQ-like DNA polymerase III subunit)

UPIE_94

UPIE_95

UPIE_96
(endonuclease VII)

UPIE_97

UPIE_98

UPIE_99

UPIE_100

UPIE_101

UPIE_102 — tRNA
(codon recognized: UUG)

UPIE_103 — tRNA
(codon recognized: ACG)

UPIE_104

UPIE_105 — tRNA
(codon recognized: AAG)

UPIE_106 — tRNA
(codon recognized: UAC)

UPIE_107 — tRNA
(codon recognized: UGG)

UPIE_108 — tRNA
(codon recognized: CUA)

UPIE_109 — tRNA
(codon recognized: CAC)

UPIE_110

UPIE_111

UPIE_112 — tRNA
(codon recognized: UGC)

UPIE_113

UPIE_114 — tRNA
(codon recognized: AAA)

UPIE_115

UPIE_116

UPIE_117

UPIE_118

UPIE_119

UPIE_120

UPIE_121

UPIE_122

UPIE_123

UPIE_124

UPIE_125

UPIE_126

UPIE_127

UPIE_128
(AAA-ATPase)

UPIE_129

UPIE_130

UPIE_131

Publication Info
Uploaded to GenBank?Yes
GenBank AccessionJF704113
Refseq NumberNone yet
Published in PaperPope, 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 2009ORSUupieSNP
SEA Lysate Titer 2.1e11
Pitt Freezer Box# 3
Pitt Freezer Box Grid# C6
Available Files
Plaque PictureDownload
Virtual Digest PictureDownload
EM PictureDownload