Mutagenetix > Incidental Mutation

Incidental Mutation 'R4079:Pdss2'

316760

Institutional Source

Beutler Lab

Gene Symbol

Pdss2

Ensembl Gene

ENSMUSG00000038240

Gene Name

prenyl (solanesyl) diphosphate synthase, subunit 2

Synonyms

5430420P03Rik, kd, mDLP1, PLMP

MMRRC Submission

040976-MU

Accession Numbers

Is this an essential gene?

Essential (E-score: 1.000) question?

Stock #

R4079 (G1)

Quality Score

225

Status

Validated

Chromosome

Chromosomal Location

43221486-43464882 bp(+) (GRCm38)

Type of Mutation

missense

DNA Base Change (assembly)

A to T at 43402522 bp (GRCm38)

Zygosity

Heterozygous

Amino Acid Change

Methionine to Leucine at position 342 (M342L)

Ref Sequence

ENSEMBL: ENSMUSP00000124046 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000095725] [ENSMUST00000159139] [ENSMUST00000160823]

AlphaFold

Q33DR3

Predicted Effect

probably benign
Transcript: ENSMUST00000095725

SMART Domains

Protein: ENSMUSP00000093393
Gene: ENSMUSG00000038240

Domain	Start	End	E-Value	Type
low complexity region	2	18	N/A	INTRINSIC
low complexity region	32	46	N/A	INTRINSIC
Pfam:polyprenyl_synt	106	324	9e-20	PFAM

Predicted Effect

probably benign
Transcript: ENSMUST00000159139

SMART Domains

Protein: ENSMUSP00000124864
Gene: ENSMUSG00000038240

Domain	Start	End	E-Value	Type
low complexity region	2	18	N/A	INTRINSIC
low complexity region	32	46	N/A	INTRINSIC
Pfam:polyprenyl_synt	103	323	7.9e-15	PFAM

Predicted Effect

probably benign
Transcript: ENSMUST00000160823
AA Change: M342L

PolyPhen 2 Score 0.000 (Sensitivity: 1.00; Specificity: 0.00)

SMART Domains

Protein: ENSMUSP00000124046
Gene: ENSMUSG00000038240
AA Change: M342L

Domain	Start	End	E-Value	Type
low complexity region	2	18	N/A	INTRINSIC
low complexity region	32	46	N/A	INTRINSIC
Pfam:polyprenyl_synt	103	319	7.4e-15	PFAM

Predicted Effect

probably benign
Transcript: ENSMUST00000162008

SMART Domains

Protein: ENSMUSP00000124440
Gene: ENSMUSG00000038240

Domain	Start	End	E-Value	Type
SCOP:d1uby__	9	136	1e-16	SMART

Meta Mutation Damage Score

0.0898

Coding Region Coverage

1x: 99.2%
3x: 98.6%
10x: 97.4%
20x: 95.5%

Validation Efficiency

97% (73/75)

MGI Phenotype

FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] The protein encoded by this gene is an enzyme that synthesizes the prenyl side-chain of coenzyme Q, or ubiquinone, one of the key elements in the respiratory chain. The gene product catalyzes the formation of all trans-polyprenyl pyrophosphates from isopentyl diphosphate in the assembly of polyisoprenoid side chains, the first step in coenzyme Q biosynthesis. Defects in this gene are a cause of coenzyme Q10 deficiency.[provided by RefSeq, Oct 2009]
PHENOTYPE: Mutations in this gene result in renal abnormalities leading to early death. [provided by MGI curators]

Allele List at MGI

Other mutations in this stock

Total: 65 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
Ago3	C	G	4: 126,353,680		probably null	Het
Ankfy1	C	A	11: 72,690,009		probably benign	Het
Ap4b1	T	A	3: 103,813,378	N121K	probably damaging	Het
Arhgef12	T	C	9: 42,975,292	M1131V	probably damaging	Het
Arl5c	A	T	11: 97,993,501	I88N	probably damaging	Het
Armc9	A	T	1: 86,213,129		probably benign	Het
Bnc1	T	C	7: 81,973,760	E573G	probably damaging	Het
Btaf1	A	G	19: 36,986,479	T817A	probably benign	Het
C3	C	T	17: 57,205,303	D1542N	possibly damaging	Het
Cadm3	A	G	1: 173,341,669	V293A	probably benign	Het
Cadps	C	T	14: 12,457,702	A1060T	probably benign	Het
Cbfa2t3	A	G	8: 122,647,695		probably null	Het
Ccdc18	C	T	5: 108,158,528	Q270*	probably null	Het
Cdc45	A	T	16: 18,811,360	V19D	probably damaging	Het
Cfap57	C	A	4: 118,598,997	S500I	probably benign	Het
Cnga3	A	T	1: 37,241,865	Q47L	possibly damaging	Het
Corin	T	C	5: 72,503,883	D89G	probably benign	Het
Cox16	A	T	12: 81,474,335		probably benign	Het
Cyp2a4	A	G	7: 26,307,366	N50S	probably benign	Het
Diaph1	T	A	18: 37,853,583	E1116D	possibly damaging	Het
Dlg5	T	C	14: 24,148,260	D1535G	possibly damaging	Het
Enpp1	A	G	10: 24,669,007		probably null	Het
F13b	T	A	1: 139,501,770	F9I	unknown	Het
Fcer1a	C	T	1: 173,225,353	C36Y	probably damaging	Het
Fcho2	A	G	13: 98,755,612	V318A	probably damaging	Het
Fzd9	A	G	5: 135,249,636	V465A	probably benign	Het
Gm10354	A	T	5: 14,977,649	L71Q	probably damaging	Het
Hbs1l	T	C	10: 21,352,602	V493A	probably damaging	Het
Hgs	T	A	11: 120,483,048	S723T	probably benign	Het
Hnrnpul1	C	T	7: 25,726,875	R517Q	probably damaging	Het
Kpna7	A	G	5: 145,005,927	I83T	possibly damaging	Het
Llgl1	C	A	11: 60,710,284		probably null	Het
Lrig3	A	C	10: 126,009,787	E695A	probably damaging	Het
Lrpap1	A	G	5: 35,096,037	I261T	possibly damaging	Het
Mfn1	T	G	3: 32,542,849	L152W	probably damaging	Het
Mog	A	G	17: 37,012,410	F212S	probably damaging	Het
Mpeg1	A	G	19: 12,462,270	N364S	probably damaging	Het
Mtmr3	C	T	11: 4,491,057	R531Q	probably damaging	Het
Mx2	A	G	16: 97,556,036	N443S	probably damaging	Het
Nfatc3	T	C	8: 106,079,491	Y323H	probably damaging	Het
Nup188	G	A	2: 30,309,878	D305N	probably damaging	Het
Obscn	A	G	11: 59,038,363	V6145A	probably benign	Het
Olfr1037	A	G	2: 86,085,312	V155A	possibly damaging	Het
Olfr686	A	T	7: 105,204,021	H107Q	probably damaging	Het
Patl1	C	T	19: 11,931,630	A467V	probably damaging	Het
Phax	A	G	18: 56,575,979	N183S	possibly damaging	Het
Pnck	A	T	X: 73,658,155	V93E	probably damaging	Het
Prol1	A	G	5: 88,328,216	N155S	unknown	Het
Ptprk	G	A	10: 28,263,512	V78I	probably benign	Het
Ptpru	A	T	4: 131,798,710		probably null	Het
Ptprv	A	G	1: 135,110,430		noncoding transcript	Het
Ranbp3l	A	G	15: 9,060,757	N233S	probably damaging	Het
Rapgefl1	A	G	11: 98,849,977	T552A	probably benign	Het
Rasgrp1	A	G	2: 117,285,029	S693P	probably benign	Het
Scyl2	A	T	10: 89,640,596	M889K	probably benign	Het
Serpina3a	C	T	12: 104,119,675	Q320*	probably null	Het
Slc12a1	A	T	2: 125,200,623	N733I	possibly damaging	Het
Snap47	C	T	11: 59,428,551	V254I	probably benign	Het
St6galnac2	A	T	11: 116,681,898	L244Q	possibly damaging	Het
Syce1	C	A	7: 140,779,896	L83F	probably damaging	Het
Tjp2	A	T	19: 24,108,818	V780E	possibly damaging	Het
Tns1	G	A	1: 73,995,308	R192C	probably damaging	Het
Trav6-3	T	C	14: 53,430,080	L3P	possibly damaging	Het
Ung	G	T	5: 114,130,623		probably null	Het
Usp32	T	A	11: 85,039,229	Y574F	probably damaging	Het

Other mutations in Pdss2

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL02346:Pdss2	APN	10	43345643	missense	possibly damaging	0.80
IGL03337:Pdss2	APN	10	43345593	missense	probably damaging	1.00
IGL03340:Pdss2	APN	10	43394001	missense	probably benign	0.00
whup	UTSW	10	43393949	missense	possibly damaging	0.75
R0277:Pdss2	UTSW	10	43372176	missense	probably benign
R0323:Pdss2	UTSW	10	43372176	missense	probably benign
R0324:Pdss2	UTSW	10	43393928	missense	probably damaging	1.00
R0508:Pdss2	UTSW	10	43221931	small deletion	probably benign
R0654:Pdss2	UTSW	10	43221931	small deletion	probably benign
R1472:Pdss2	UTSW	10	43413537	missense	probably benign	0.00
R1801:Pdss2	UTSW	10	43345605	missense	probably benign	0.29
R2024:Pdss2	UTSW	10	43393875	missense	possibly damaging	0.81
R2025:Pdss2	UTSW	10	43393875	missense	possibly damaging	0.81
R2026:Pdss2	UTSW	10	43393875	missense	possibly damaging	0.81
R4077:Pdss2	UTSW	10	43402522	missense	probably benign
R4292:Pdss2	UTSW	10	43221838	missense	probably benign
R4518:Pdss2	UTSW	10	43372150	missense	probably damaging	0.99
R4603:Pdss2	UTSW	10	43372201	missense	probably damaging	0.99
R4962:Pdss2	UTSW	10	43298912	missense	possibly damaging	0.47
R5016:Pdss2	UTSW	10	43222005	missense	probably damaging	1.00
R5610:Pdss2	UTSW	10	43439832	missense	probably benign	0.00
R5888:Pdss2	UTSW	10	43221797	synonymous	silent
R5972:Pdss2	UTSW	10	43298926	missense	probably damaging	0.99
R7246:Pdss2	UTSW	10	43372176	missense	probably benign
R7697:Pdss2	UTSW	10	43345548	missense	probably damaging	1.00
R7765:Pdss2	UTSW	10	43464632	missense	probably benign	0.33
R8227:Pdss2	UTSW	10	43345581	missense	probably damaging	1.00
R8497:Pdss2	UTSW	10	43413525	missense	possibly damaging	0.89
R8897:Pdss2	UTSW	10	43345667	missense	probably damaging	1.00
R9101:Pdss2	UTSW	10	43393949	missense	possibly damaging	0.75
R9529:Pdss2	UTSW	10	43393994	missense	probably benign	0.01

Predicted Primers

PCR Primer
(F):5'- ACATTTGCATGTGCTTGCTTAC -3'
(R):5'- TAATGAGACATCACACGGGTC -3'

Sequencing Primer
(F):5'- TGCTAGGCATAGTAGCATATGCC -3'
(R):5'- GGGTCTTCCAGCATCATGAACTAG -3'

Posted On

2015-05-15