phiX174

Complete annotated DNA sequence of bacteriophage phiX174.
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HomePlasmidsBasic Cloning VectorsphiX174
BssHII (5348) DraIII (5188) DrdI (5177) BaeGI - Bme1580I (4783) ApaLI (4779) TaqII (4618) BsiEI (4604) StuI (4488) MfeI (3939) BspQI - SapI (3752) CsiI - SexAI * (3499) AleI (2916) SacII (2862) AatII (2786) PstI (0) FspI (157) AvaI - BsoBI - PaeR7I - XhoI (162) BsrBI (532) SspI (1009) PshAI (1698) AhdI (1765) BtsI - BtsαI (2210) PsiI (2306) ZraI (2784) Φ X174 5386 bp
BssHII  (5348)
1 site		 G C G C G C C G C G C G
BssHII is typically used at 50°C, but is 75% active at 37°C.
DraIII  (5188)
1 site		 C A C N N N G T G G T G N N N C A C
Sticky ends from different DraIII sites may not be compatible.
DrdI  (5177)
1 site		 G A C N N N N N N G T C C T G N N N N N N C A G
Sticky ends from different DrdI sites may not be compatible.
BaeGI  (4783)
1 site		 G K G C M C C M C G K G
Sticky ends from different BaeGI sites may not be compatible.
Bme1580I  (4783)
1 site		 G K G C M C C M C G K G
Sticky ends from different Bme1580I sites may not be compatible.
ApaLI  (4779)
1 site		 G T G C A C C A C G T G
TaqII  (4618)
1 site		 G A C C G A ( N ) 9 N N C T G G C T ( N ) 9
Sticky ends from different TaqII sites may not be compatible.
BsiEI  (4604)
1 site		 C G R Y C G G C Y R G C
Sticky ends from different BsiEI sites may not be compatible.
StuI  (4488)
1 site		 A G G C C T T C C G G A
MfeI  (3939)
1 site		 C A A T T G G T T A A C
BspQI  (3752)
1 site		 G C T C T T C N C G A G A A G N N N N
Sticky ends from different BspQI sites may not be compatible.
SapI  (3752)
1 site		 G C T C T T C N C G A G A A G N N N N
Sticky ends from different SapI sites may not be compatible.
SapI gradually settles in solution, so a tube of SapI should be mixed before removing an aliquot.
CsiI  (3499)
1 site		 A C C W G G T T G G W C C A
Sticky ends from different CsiI sites may not be compatible.
SexAI  (3499)
1 site		 A C C W G G T T G G W C C A
* Blocked by Dcm methylation.
Sticky ends from different SexAI sites may not be compatible.
AleI  (2916)
1 site		 C A C N N N N G T G G T G N N N N C A C
SacII  (2862)
1 site		 C C G C G G G G C G C C
Efficient cleavage requires at least two copies of the SacII recognition sequence.
AatII  (2786)
1 site		 G A C G T C C T G C A G
PstI  (0)
1 site		 C T G C A G G A C G T C
FspI  (157)
1 site		 T G C G C A A C G C G T
AvaI  (162)
1 site		 C Y C G R G G R G C Y C
Sticky ends from different AvaI sites may not be compatible.
BsoBI  (162)
1 site		 C Y C G R G G R G C Y C
Sticky ends from different BsoBI sites may not be compatible.
BsoBI is typically used at 37°C, but can be used at temperatures up to 65°C.
PaeR7I  (162)
1 site		 C T C G A G G A G C T C
PaeR7I does not recognize the sequence CTCTCGAG.
XhoI  (162)
1 site		 C T C G A G G A G C T C
BsrBI  (532)
1 site		 C C G C T C G G C G A G
This recognition sequence is asymmetric, so ligating blunt ends generated by BsrBI will not always regenerate a BsrBI site.
BsrBI is typically used at 37°C, but can be used at temperatures up to 50°C.
SspI  (1009)
1 site		 A A T A T T T T A T A A
PshAI  (1698)
1 site		 G A C N N N N G T C C T G N N N N C A G
PshAI quickly loses activity at 37°C, but can be used at 25°C for long incubations.
AhdI  (1765)
1 site		 G A C N N N N N G T C C T G N N N N N C A G
The 1-base overhangs produced by AhdI may be hard to ligate.
Sticky ends from different AhdI sites may not be compatible.
BtsI  (2210)
1 site		 G C A G T G N N C G T C A C
BtsαI  (2210)
1 site		 G C A G T G N N C G T C A C
Sticky ends from different BtsαI sites may not be compatible.
PsiI  (2306)
1 site		 T T A T A A A A T A T T
ZraI  (2784)
1 site		 G A C G T C C T G C A G
F
358 .. 3975  =  3618 bp
F
358 .. 3975  =  3618 bp
A
3981 .. 5386  =  1406 bp
468 amino acids  =  53.8 kDa
Genetic Code:  Bacterial, Archaeal and Plant Plastid
Product: DNA replication initiation protein gpA
Function: viral strand synthesis
rf replication
A
3981 .. 5386  =  1406 bp
468 amino acids  =  53.8 kDa
Genetic Code:  Bacterial, Archaeal and Plant Plastid
Product: DNA replication initiation protein gpA
Function: viral strand synthesis
rf replication
A
1 .. 136  =  136 bp
44 amino acids  =  4.8 kDa
Genetic Code:  Bacterial, Archaeal and Plant Plastid
Product: protein A*
Function: shut off host DNA synthesis
Synthesized from the larger A gene by internal translation initiation in the same frame as protein A. May be involved in host DNA replication shut off.
A
1 .. 136  =  136 bp
44 amino acids  =  4.8 kDa
Genetic Code:  Bacterial, Archaeal and Plant Plastid
Product: protein A*
Function: shut off host DNA synthesis
Synthesized from the larger A gene by internal translation initiation in the same frame as protein A. May be involved in host DNA replication shut off.
F
1001 .. 2284  =  1284 bp
427 amino acids  =  48.5 kDa
Genetic Code:  Bacterial, Archaeal and Plant Plastid
Product: capsid protein
60 copies of protein F form the icosahedral capsid of Microviruses. other names: protein F, gpF; function: phage structural protein
F
1001 .. 2284  =  1284 bp
427 amino acids  =  48.5 kDa
Genetic Code:  Bacterial, Archaeal and Plant Plastid
Product: capsid protein
60 copies of protein F form the icosahedral capsid of Microviruses. other names: protein F, gpF; function: phage structural protein
A
4497 .. 5386  =  890 bp
296 amino acids  =  33.8 kDa
Genetic Code:  Bacterial, Archaeal and Plant Plastid
Product: protein A*
Function: shut off host DNA synthesis
Synthesized from the larger A gene by internal translation initiation in the same frame as protein A. May be involved in host DNA replication shut off.
A
4497 .. 5386  =  890 bp
296 amino acids  =  33.8 kDa
Genetic Code:  Bacterial, Archaeal and Plant Plastid
Product: protein A*
Function: shut off host DNA synthesis
Synthesized from the larger A gene by internal translation initiation in the same frame as protein A. May be involved in host DNA replication shut off.
A
1 .. 136  =  136 bp
44 amino acids  =  4.8 kDa
Genetic Code:  Bacterial, Archaeal and Plant Plastid
Product: DNA replication initiation protein gpA
Function: viral strand synthesis
rf replication
A
1 .. 136  =  136 bp
44 amino acids  =  4.8 kDa
Genetic Code:  Bacterial, Archaeal and Plant Plastid
Product: DNA replication initiation protein gpA
Function: viral strand synthesis
rf replication
H
2931 .. 3917  =  987 bp
328 amino acids  =  34.4 kDa
Genetic Code:  Bacterial, Archaeal and Plant Plastid
Product: minor spike protein
Function: adsorption
One molecule of protein H is located at each of the 12 vertices with 5-fold symmetry.  Binds to LPS and is involved in particle adsorption to host cells.  Several protein H molecules enter the host cytoplasm with the phage genome. other names: protein H, gpH, DNA pilot protein; function: phage minor structural protein, adsorption, DNA injection
H
2931 .. 3917  =  987 bp
328 amino acids  =  34.4 kDa
Genetic Code:  Bacterial, Archaeal and Plant Plastid
Product: minor spike protein
Function: adsorption
One molecule of protein H is located at each of the 12 vertices with 5-fold symmetry.  Binds to LPS and is involved in particle adsorption to host cells.  Several protein H molecules enter the host cytoplasm with the phage genome. other names: protein H, gpH, DNA pilot protein; function: phage minor structural protein, adsorption, DNA injection
D
358 .. 991  =  634 bp
D
358 .. 991  =  634 bp
G
2395 .. 2922  =  528 bp
175 amino acids  =  19.0 kDa
Genetic Code:  Bacterial, Archaeal and Plant Plastid
Product: major spike protein
A total of 60 copies of protein G are present at the 12 vertices with 5-fold symmetry of Microvirus capsids. other names: protein G, gpG; function: phage minor structural protein
G
2395 .. 2922  =  528 bp
175 amino acids  =  19.0 kDa
Genetic Code:  Bacterial, Archaeal and Plant Plastid
Product: major spike protein
A total of 60 copies of protein G are present at the 12 vertices with 5-fold symmetry of Microvirus capsids. other names: protein G, gpG; function: phage minor structural protein
origin of viral strand synthesis
4306 .. 4306  =  1 bp
origin of viral strand synthesis
origin of viral strand synthesis
4306 .. 4306  =  1 bp
origin of viral strand synthesis
D
390 .. 848  =  459 bp
152 amino acids  =  16.9 kDa
Genetic Code:  Bacterial, Archaeal and Plant Plastid
Product: external scaffolding protein
Function: capsid morphogenesis
240 molecules of protein D form an external scaffold required for the formation of Microvirus procapsid. Not present in mature particles. other names: protein D, gpD; function: morphogenesis
D
390 .. 848  =  459 bp
152 amino acids  =  16.9 kDa
Genetic Code:  Bacterial, Archaeal and Plant Plastid
Product: external scaffolding protein
Function: capsid morphogenesis
240 molecules of protein D form an external scaffold required for the formation of Microvirus procapsid. Not present in mature particles. other names: protein D, gpD; function: morphogenesis
B
5075 .. 5386  =  312 bp
104 amino acids  =  11.8 kDa
Genetic Code:  Bacterial, Archaeal and Plant Plastid
Product: internal scaffolding protein
Function: capsid morphogenesis
Protein B is required for the assembly of the basic building block of the Microvirus capsid and is incorporated into the procapsid.  Protein B is displaced by the protein J/ssDNA complex during assembly and is therefore not part of the mature virion. Other names: protein B, gpB. Function: morphogenesis.
B
5075 .. 5386  =  312 bp
104 amino acids  =  11.8 kDa
Genetic Code:  Bacterial, Archaeal and Plant Plastid
Product: internal scaffolding protein
Function: capsid morphogenesis
Protein B is required for the assembly of the basic building block of the Microvirus capsid and is incorporated into the procapsid.  Protein B is displaced by the protein J/ssDNA complex during assembly and is therefore not part of the mature virion. Other names: protein B, gpB. Function: morphogenesis.
B
1 .. 51  =  51 bp
16 amino acids  =  2.0 kDa
Genetic Code:  Bacterial, Archaeal and Plant Plastid
Product: internal scaffolding protein
Function: capsid morphogenesis
Protein B is required for the assembly of the basic building block of the Microvirus capsid and is incorporated into the procapsid.  Protein B is displaced by the protein J/ssDNA complex during assembly and is therefore not part of the mature virion. Other names: protein B, gpB. Function: morphogenesis.
B
1 .. 51  =  51 bp
16 amino acids  =  2.0 kDa
Genetic Code:  Bacterial, Archaeal and Plant Plastid
Product: internal scaffolding protein
Function: capsid morphogenesis
Protein B is required for the assembly of the basic building block of the Microvirus capsid and is incorporated into the procapsid.  Protein B is displaced by the protein J/ssDNA complex during assembly and is therefore not part of the mature virion. Other names: protein B, gpB. Function: morphogenesis.
E
568 .. 843  =  276 bp
91 amino acids  =  10.6 kDa
Genetic Code:  Bacterial, Archaeal and Plant Plastid
Product: cell lysis protein
Function: cell lysis
Microvirus cell lysis protein is a membrane protein that inhibits MraY, an enzyme required for murein synthesis, and promotes cell lysis in a manner analogous to cell wall synthesis inhibitors like penicillin.  A host factor (slyD) is required for stability of protein E. other names: protein E, gpE; function: phage release by lysis
E
568 .. 843  =  276 bp
91 amino acids  =  10.6 kDa
Genetic Code:  Bacterial, Archaeal and Plant Plastid
Product: cell lysis protein
Function: cell lysis
Microvirus cell lysis protein is a membrane protein that inhibits MraY, an enzyme required for murein synthesis, and promotes cell lysis in a manner analogous to cell wall synthesis inhibitors like penicillin.  A host factor (slyD) is required for stability of protein E. other names: protein E, gpE; function: phage release by lysis
phiX174p05
133 .. 393  =  261 bp
86 amino acids  =  10.1 kDa
Genetic Code:  Bacterial, Archaeal and Plant Plastid
Product: C
DNA maturation
phiX174p05
133 .. 393  =  261 bp
86 amino acids  =  10.1 kDa
Genetic Code:  Bacterial, Archaeal and Plant Plastid
Product: C
DNA maturation
J
848 .. 964  =  117 bp
38 amino acids  =  4.2 kDa
Genetic Code:  Bacterial, Archaeal and Plant Plastid
Product: DNA packaging protein
core protein; Protein J binds to ssDNA Microvirus genomes and is packaged with the DNA into procapsids. During packaging it displaces the internal scaffold protein. other names: core protein, protein J; function: DNA packaging, DNA binding
J
848 .. 964  =  117 bp
38 amino acids  =  4.2 kDa
Genetic Code:  Bacterial, Archaeal and Plant Plastid
Product: DNA packaging protein
core protein; Protein J binds to ssDNA Microvirus genomes and is packaged with the DNA into procapsids. During packaging it displaces the internal scaffold protein. other names: core protein, protein J; function: DNA packaging, DNA binding
ORF:  133 .. 393  =  261 bp
ORF:  86 amino acids  =  10.1 kDa
ORF:  568 .. 843  =  276 bp
ORF:  91 amino acids  =  10.6 kDa
ORF:  2395 .. 2922  =  528 bp
ORF:  175 amino acids  =  19.0 kDa
ORF:  3076 .. 3684  =  609 bp
ORF:  202 amino acids  =  24.0 kDa
ORF:  3946 .. 4263  =  318 bp
ORF:  105 amino acids  =  12.1 kDa
ORF:  4621 .. 4857  =  237 bp
ORF:  78 amino acids  =  8.6 kDa
ORF:  1001 .. 2284  =  1284 bp
ORF:  427 amino acids  =  48.5 kDa
ORF:  5075 .. 51  =  363 bp
ORF:  120 amino acids  =  13.8 kDa
ORF:  390 .. 848  =  459 bp
ORF:  152 amino acids  =  16.9 kDa
ORF:  1998 .. 2234  =  237 bp
ORF:  78 amino acids  =  9.0 kDa
ORF:  2931 .. 3917  =  987 bp
ORF:  328 amino acids  =  34.4 kDa
ORF:  3954 .. 136  =  1569 bp
ORF:  522 amino acids  =  59.7 kDa
ORF:  818 .. 1051  =  234 bp
ORF:  77 amino acids  =  8.7 kDa
ORF:  1094 .. 1651  =  558 bp
ORF:  185 amino acids  =  21.0 kDa
ORF:  1772 .. 2167  =  396 bp
ORF:  131 amino acids  =  15.7 kDa
ORF:  2518 .. 2742  =  225 bp
ORF:  74 amino acids  =  8.4 kDa
ORF:  3921 .. 4211  =  291 bp
ORF:  96 amino acids  =  11.2 kDa
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Individual Sequences & Maps

BlueScribe
pEASY-T1 (linearized)
pJET1.2
pSMART LCAmp
CAG promoter
pEASY-T1 Simple (linearized)
pJET1.2 blunt
pSMART LCAmp (linearized)
chicken beta-actin promoter
pEASY-T3 (linearized)
pJW168
pSMART LCKan
CLIP-tag
pEASY-T5 Zero (linearized)
pKF 18k-2
pSMART LCKan (linearized)
CMV promoter
pEX-1
pKF 19k-2
pSP64 Poly(A)
GAL1 promoter
pEX-A
pKOV
pSP72
GST
pEX-C-GST
pLATE11 (linearized)
pSP73
HaloTag
pEX-C-His
pLATE31 (linearized)
pSpark Done (linearized)
HSV TK promoter
pEX-K
pLATE51 (linearized)
pSpark I (linearized)
lac operator
pEX-N-GST
pLATE52 (linearized)
pSpark II (linearized)
lac promoter
pEX-N-His
pLEXX-AK
pSpark III (linearized)
lac UV5 promoter
pEX-N-His-GST
pLPS-B (linearized)
pSpark IV (linearized)
lacZ
pEX1
pMAL-c5E
pSpark V (linearized)
lambda
pEX2
pMAL-c5G
pSpot1
LITMUS28
pEX3
pMAL-c5X
pSpot2
LITMUS28i
pEZSeq-Amp
pMAL-c5X-His
pSpot3
LITMUS29
pEZSeq-Amp (linearized)
pMAL-c6T
pSpot4
LITMUS38
pEZSeq-Kan
pMAL-p5E
pSTBlue-1
LITMUS38i
pEZSeq-Kan (linearized)
pMAL-p5G
pSTV28
LITMUS39
pEZ BAC
pMAL-p5X
pSTV29
M13mp18
pEZ BAC (BamHI linearized)
pMCS5
pT7Blue
M13mp19
pEZ BAC (HpaI linearized)
pMiniT
pT7Blue-2
MBP
pF1A T7
pMiniT (linearized)
pT7Blue-3
pACYC177
pF1K T7
pMiniT 2.0
pT7CFE1-CFtag
pACYC184
pF25A ICE T7
pMiniT 2.0 (linearized)
pT7CFE1-CGFP-HA-His
pAN7-1
pF25K ICE T7
pMMB190
pT7CFE1-CGST-HA-His
pANT7_cGST
pF3A WG (BYDV)
pMMB206
pT7CFE1-CHA
pANT7_nHA
pF3K WG (BYDV)
pMMB207
pT7CFE1-CHis
pAUR316
pFC20A HaloTag T7 SP6
pMMB208
pT7CFE1-CMyc
pBC KS(+)
pFC20K HaloTag T7 SP6
pMMB66EH
pT7CFE1-NFtag
pBC KS(-)
pFC30A His6HaloTag T7
pMMB66HE
pT7CFE1-NHA
pBC SK(+)
pFC30K His6HaloTag T7
pMMB67EH
pT7CFE1-NHA-CHis
pBC SK(-)
pFC7A (HQ)
pMMB67HE
pT7CFE1-NHis
pBeloBAC11
pFC7K (HQ)
pNEB193
pT7CFE1-NHis-GST
pBluescript II KS(+)
pFN18A HaloTag T7
pNEB206A (linearized)
pT7CFE1-NHis-GST-CHA
pBluescript II KS(-)
pFN18K HaloTag T7
pOSIP-CH
pT7CFE1-NMyc
pBluescript II SK(+)
pFN19A HaloTag T7 SP6
pOSIP-CO
pTOP Blunt V2 (linearized)
pBluescript II SK(-)
pFN19K HaloTag T7 SP6
pOSIP-CT
pTrcHis A
pBluescript KS(+)
pFN29A His6HaloTag T7
pOSIP-KC
pTrcHis B
pBluescript KS(-)
pFN29K His6HaloTag T7
pOSIP-KH
pTrcHis C
pBluescript SK(+)
pFN2A (GST)
pOSIP-KL
pTrcHis2 A
pBluescript SK(-)
pFN2K (GST)
pOSIP-KO
pTrcHis2 B
pBR322
pFN6A (HQ)
pOSIP-KP
pTrcHis2 C
pBS KS(+)
pFN6K (HQ)
pOSIP-KT
pTV 118N
pBS KS(-)
pGEM-11Zf(+)
pOSIP-TH
pTWV228
pBS SK(+)
pGEM-11Zf(-)
pOSIP-TO
pTXB1
pBS SK(-)
pGEM-3Z
pOSIP-TT
pTYB21
pBS(+)
pGEM-3Zf(+)
pPCR-Script Amp SK(+)
pType IIs
pBS(-)
pGEM-3Zf(-)
pPCR-Script Cam SK(+)
pTZ19R
pBSK(+) Simple-Amp
pGEM-4Z
pPTR I
pTZ19U
pBSK(+) Simple-Kan
pGEM-5Zf(+)
pPTR II
pTZ57R
pcDNA3
pGEM-7Zf(+)
pRACE (linearized)
pUAST
pcDNA3.1(+)
pGEM-7Zf(-)
pRANGER-BTB-1
pUC118
pcDNA3.1(-)
pGEM-9Zf(-)
pRANGER-BTB-2
pUC119
pCold I
pGEM-T
pRANGER-BTB-3
pUC18
pCold II
pGEM-T (linearized)
pRANGER-BTB-5
pUC19
pCold III
pGEM-T Easy
pRHA-109
pUC19L
pCold IV
pGEM-T Easy (linearized)
pRHA-113
pUC57
pCold TF
pGGA
pRHA-67
pUC57-Kan
pCR-XL-2-TOPO
pGGAselect
pRSET A
pUC57-Simple
pCR-XL-2-TOPO (linearized)
PGK promoter
pRSET B
pUCmu
pDD
pGS-21a
pRSET C
pVLT31
pDNR-Dual
pH6HTC His6HaloTag T7
pSB1C3
pVLT33
pDNR-LIB
pH6HTN His6HaloTag T7
pSC101
pVLT35
pE-SUMOpro Amp
pHP45(omega)
pSEAP2-Basic
pYES1L
pE-SUMOpro Kan
pHP45(omega)-Km
pSF-Core
pZErO-2
pE-SUMOpro3 Amp
pHP45(omega)-Tc
pSMART BAC v2.0
SNAP-tag
pE-SUMOpro3 Kan
pHSG298
pSMART BAC v2.0 (BamHI linearized)
SP6 promoter
pE-SUMOstar Amp
pHSG299
pSMART BAC v2.0 (EcoRI linearized)
SV40 promoter
pE-SUMOstar Kan
pHSG396
pSMART BAC v2.0 (HindIII linearized)
T3 promoter
pEASY-Blunt (linearized)
pHSG398
pSMART FOS v2.0 (linearized)
T5 promoter
pEASY-Blunt E1 (linearized)
pHY300PLK
pSMART HCAmp
T7 promoter
pEASY-Blunt E2 (linearized)
pICOz
pSMART HCAmp (linearized)
tac promoter
pEASY-Blunt Simple (linearized)
pInvRecA
pSMART HCKan
trc promoter
pEASY-Blunt Zero (linearized)
pJAZZ-OC
pSMART HCKan (linearized)
phiX174
pEASY-Blunt3 (linearized)
pJAZZ-OK

Plasmid Sets

Basic Cloning Vectors
I.M.A.G.E. Consortium Plasmids
pET & Duet Vectors (Novagen)
TA and GC Cloning Vectors
Coronavirus Resources
Insect Cell Vectors
pGEX Vectors (GE Healthcare)
TOPO Cloning Vectors
CRISPR Plasmids
Luciferase Vectors
Plant Vectors
Viral Expression & Packaging Vectors
Fluorescent Protein Genes & Plasmids
Lucigen Vectors
Qiagen Vectors
Yeast Plasmids
Gateway® Cloning Vectors
Mammalian Expression Vectors
Structural Genomics Vectors

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