Mutagenetix > Incidental Mutation

Incidental Mutation 'R6306:Slc25a19'

509687

Institutional Source

Beutler Lab

Gene Symbol

Slc25a19

Ensembl Gene

ENSMUSG00000020744

Gene Name

solute carrier family 25 (mitochondrial thiamine pyrophosphate carrier), member 19

Synonyms

2900089E13Rik, DNC, MUP1, TPC

MMRRC Submission

044468-MU

Accession Numbers

Essential gene?

Essential (E-score: 1.000) question?

Stock #

R6306 (G1)

Quality Score

225.009

Status

Validated

Chromosome

Chromosomal Location

115505004-115519121 bp(-) (GRCm39)

Type of Mutation

missense

DNA Base Change (assembly)

G to A at 115508386 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Arginine to Cysteine at position 201 (R201C)

Ref Sequence

ENSEMBL: ENSMUSP00000137534 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000021087] [ENSMUST00000021089] [ENSMUST00000106503] [ENSMUST00000106506] [ENSMUST00000178003] [ENSMUST00000135552]

AlphaFold

Q9DAM5

Predicted Effect

probably benign
Transcript: ENSMUST00000021087

SMART Domains

Protein: ENSMUSP00000021087
Gene: ENSMUSG00000020743

Domain	Start	End	E-Value	Type
Pfam:MIF4G	4	205	1.4e-14	PFAM

Predicted Effect

possibly damaging
Transcript: ENSMUST00000021089
AA Change: R201C

PolyPhen 2 Score 0.912 (Sensitivity: 0.81; Specificity: 0.94)

SMART Domains

Protein: ENSMUSP00000021089
Gene: ENSMUSG00000020744
AA Change: R201C

Domain	Start	End	E-Value	Type
Pfam:Mito_carr	12	111	5.7e-20	PFAM
Pfam:Mito_carr	114	205	5.3e-24	PFAM
Pfam:Mito_carr	212	313	5.2e-23	PFAM

Predicted Effect

probably benign
Transcript: ENSMUST00000106503

SMART Domains

Protein: ENSMUSP00000102112
Gene: ENSMUSG00000020744

Domain	Start	End	E-Value	Type
Pfam:Mito_carr	11	111	1.7e-22	PFAM
Pfam:Mito_carr	114	172	9.7e-9	PFAM

Predicted Effect

probably benign
Transcript: ENSMUST00000106506

SMART Domains

Protein: ENSMUSP00000102115
Gene: ENSMUSG00000020743

Domain	Start	End	E-Value	Type
Pfam:MIF4G	4	186	1.1e-9	PFAM

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000124407

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000127132

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000129194

Predicted Effect

possibly damaging
Transcript: ENSMUST00000178003
AA Change: R201C

PolyPhen 2 Score 0.912 (Sensitivity: 0.81; Specificity: 0.94)

SMART Domains

Protein: ENSMUSP00000137534
Gene: ENSMUSG00000020744
AA Change: R201C

Domain	Start	End	E-Value	Type
Pfam:Mito_carr	11	111	1.1e-21	PFAM
Pfam:Mito_carr	114	205	7e-25	PFAM
Pfam:Mito_carr	212	313	1e-24	PFAM

Predicted Effect

possibly damaging
Transcript: ENSMUST00000135552
AA Change: R118C

PolyPhen 2 Score 0.912 (Sensitivity: 0.81; Specificity: 0.94)

SMART Domains

Protein: ENSMUSP00000114566
Gene: ENSMUSG00000020744
AA Change: R118C

Domain	Start	End	E-Value	Type
Pfam:Mito_carr	31	122	1.1e-25	PFAM
Pfam:Mito_carr	129	226	4.7e-25	PFAM

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000180919

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000146244

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000144083

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000139556

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000137304

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000142637

Meta Mutation Damage Score

0.1795

Coding Region Coverage

1x: 100.0%
3x: 99.9%
10x: 99.5%
20x: 98.4%

Validation Efficiency

100% (88/88)

MGI Phenotype

FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] This gene encodes a mitochondrial protein that is a member of the solute carrier family. Although this protein was initially thought to be the mitochondrial deoxynucleotide carrier involved in the uptake of deoxynucleotides into the matrix of the mitochondria, further studies have demonstrated that this protein instead functions as the mitochondrial thiamine pyrophosphate carrier, which transports thiamine pyrophosphates into mitochondria. Mutations in this gene cause microcephaly, Amish type, a metabolic disease that results in severe congenital microcephaly, severe 2-ketoglutaric aciduria, and death within the first year. Multiple alternatively spliced variants, encoding the same protein, have been identified for this gene. [provided by RefSeq, Jul 2008]
PHENOTYPE: Homozygous mutation of this gene results in lethality by E12, neural tube closure defects resulting in exencephaly and microcephaly, growth arrest, anemia, elevated alpha-ketoglutarate in amniotic fluid, and reduced thiamine pyrophosphate content in mitochondria. [provided by MGI curators]

Allele List at MGI

Other mutations in this stock

Total: 88 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
Adamts7	G	A	9: 90,060,331 (GRCm39)		probably null	Het
Adora2a	T	A	10: 75,169,238 (GRCm39)	V234E	probably damaging	Het
Alpk1	T	C	3: 127,479,965 (GRCm39)	D188G	probably damaging	Het
Ankdd1a	C	T	9: 65,415,343 (GRCm39)	A227T	possibly damaging	Het
Ankrd17	A	G	5: 90,392,013 (GRCm39)	F1886L	probably benign	Het
Anks1	T	G	17: 28,269,613 (GRCm39)	L769R	probably damaging	Het
Apol10a	A	G	15: 77,373,161 (GRCm39)	I266V	probably benign	Het
Arhgef28	T	C	13: 98,121,896 (GRCm39)	Y556C	probably damaging	Het
Brd8	T	A	18: 34,744,304 (GRCm39)	T175S	probably damaging	Het
Camsap2	C	T	1: 136,208,937 (GRCm39)	V852I	probably benign	Het
Cd55b	G	T	1: 130,341,803 (GRCm39)	P278Q	probably damaging	Het
Cep290	T	A	10: 100,367,028 (GRCm39)	S1126R	possibly damaging	Het
Cfh	C	T	1: 140,030,155 (GRCm39)	C906Y	probably damaging	Het
Chst13	C	A	6: 90,286,260 (GRCm39)	R234L	probably damaging	Het
Clcn7	T	C	17: 25,376,502 (GRCm39)	F611L	probably benign	Het
Cntnap1	A	G	11: 101,075,441 (GRCm39)	D873G	probably damaging	Het
Cntnap5b	T	C	1: 100,091,871 (GRCm39)	I518T	probably damaging	Het
Col28a1	T	C	6: 8,014,969 (GRCm39)	E812G	probably damaging	Het
Cpa1	T	C	6: 30,640,953 (GRCm39)	I148T	probably damaging	Het
Cyp11a1	A	G	9: 57,932,383 (GRCm39)	N232S	probably benign	Het
Dhrs13	A	G	11: 77,923,519 (GRCm39)	D79G	probably damaging	Het
Disp1	T	C	1: 182,868,712 (GRCm39)	E1236G	possibly damaging	Het
Dnah1	A	C	14: 31,026,544 (GRCm39)	L778R	probably damaging	Het
Dnah14	CTGTG	CTG	1: 181,412,589 (GRCm39)		probably null	Het
Dnase1l1	C	T	X: 73,320,644 (GRCm39)		probably null	Homo
Dock9	A	T	14: 121,799,492 (GRCm39)	I1729N	probably damaging	Het
Dysf	T	C	6: 84,114,248 (GRCm39)	V1192A	possibly damaging	Het
Enpp2	A	G	15: 54,762,742 (GRCm39)	S169P	probably damaging	Het
Fam114a2	T	G	11: 57,404,972 (GRCm39)	R43S	probably damaging	Het
Fam13a	T	C	6: 58,917,239 (GRCm39)	T546A	probably benign	Het
Fos	A	T	12: 85,522,460 (GRCm39)	D163V	probably damaging	Het
Fras1	T	C	5: 96,912,805 (GRCm39)	Y3370H	probably damaging	Het
Fshr	T	C	17: 89,507,961 (GRCm39)	N27S	probably null	Het
Galnt6	A	G	15: 100,591,305 (GRCm39)	S600P	possibly damaging	Het
Gars1	T	A	6: 55,032,809 (GRCm39)	N260K	probably damaging	Het
Gpr158	C	G	2: 21,820,422 (GRCm39)	P640A	possibly damaging	Het
Grep1	T	C	17: 23,925,124 (GRCm39)	N495S	possibly damaging	Het
Grik3	A	G	4: 125,526,205 (GRCm39)	D146G	probably benign	Het
Hdac4	T	C	1: 91,923,896 (GRCm39)	T205A	probably benign	Het
Kcnq3	T	C	15: 65,876,643 (GRCm39)	D500G	probably benign	Het
Kmt5c	A	G	7: 4,749,480 (GRCm39)	K333E	probably benign	Het
Krt81	A	G	15: 101,357,404 (GRCm39)	S443P	probably benign	Het
M6pr	T	C	6: 122,292,121 (GRCm39)		probably null	Het
Mccc2	T	A	13: 100,130,085 (GRCm39)	I91L	probably benign	Het
Nip7	A	G	8: 107,785,055 (GRCm39)	D110G	probably damaging	Het
Nol8	T	A	13: 49,829,829 (GRCm39)	F1093I	probably damaging	Het
Nrxn1	T	C	17: 90,872,874 (GRCm39)	T1027A	possibly damaging	Het
Ofcc1	T	A	13: 40,302,052 (GRCm39)	M495L	probably benign	Het
Or13p10	A	T	4: 118,523,490 (GRCm39)	M259L	probably benign	Het
Or7e178	A	G	9: 20,225,742 (GRCm39)	M158T	probably benign	Het
Pafah1b2	A	T	9: 45,886,425 (GRCm39)	V81D	probably damaging	Het
Pcdhga4	A	T	18: 37,818,966 (GRCm39)	S172C	probably damaging	Het
Pds5a	A	G	5: 65,813,639 (GRCm39)	V282A	probably damaging	Het
Plat	A	G	8: 23,262,282 (GRCm39)	D102G	possibly damaging	Het
Plce1	C	A	19: 38,757,909 (GRCm39)	Q1961K	probably damaging	Het
Plppr3	T	A	10: 79,697,566 (GRCm39)	K444*	probably null	Het
Plscr3	A	G	11: 69,738,472 (GRCm39)		probably null	Het
Prtg	A	T	9: 72,813,468 (GRCm39)	T943S	probably benign	Het
Racgap1	A	G	15: 99,521,834 (GRCm39)	F519L	probably benign	Het
Rbms2	A	T	10: 127,987,050 (GRCm39)		probably null	Het
Rfx7	A	G	9: 72,524,237 (GRCm39)	T476A	possibly damaging	Het
Rnf150	T	A	8: 83,810,131 (GRCm39)	L421Q	possibly damaging	Het
Sema3b	A	G	9: 107,478,119 (GRCm39)	L422P	possibly damaging	Het
Shank2	G	A	7: 143,963,417 (GRCm39)	A921T	probably benign	Het
Skint3	A	T	4: 112,113,072 (GRCm39)	E227D	probably damaging	Het
Slc38a10	G	T	11: 120,038,645 (GRCm39)	A40D	probably damaging	Het
Slc5a4b	T	C	10: 75,917,185 (GRCm39)	T284A	probably benign	Het
Smc1b	A	T	15: 85,011,824 (GRCm39)	F154I	probably benign	Het
Spry2	A	T	14: 106,130,418 (GRCm39)	M256K	possibly damaging	Het
Stkld1	C	T	2: 26,833,899 (GRCm39)	P129S	probably damaging	Het
Syce2	T	C	8: 85,599,371 (GRCm39)	L13S	possibly damaging	Het
Tbc1d15	C	A	10: 115,069,148 (GRCm39)	V74L	possibly damaging	Het
Tecpr2	T	A	12: 110,911,185 (GRCm39)	V1074D	probably damaging	Het
Tex36	G	A	7: 133,197,054 (GRCm39)	T21I	probably benign	Het
Ttn	T	G	2: 76,554,454 (GRCm39)	D30787A	probably damaging	Het
Ttn	T	A	2: 76,622,264 (GRCm39)	Q13710L	probably benign	Het
Usp34	T	C	11: 23,362,260 (GRCm39)	F1569L	possibly damaging	Het
Vat1l	C	T	8: 115,098,391 (GRCm39)	A387V	probably damaging	Het
Vil1	G	A	1: 74,460,470 (GRCm39)	G209D	possibly damaging	Het
Vmn1r113	G	T	7: 20,521,792 (GRCm39)	D195Y	probably damaging	Het
Vmn2r69	A	C	7: 85,064,799 (GRCm39)	I29R	probably benign	Het
Vti1b	G	A	12: 79,207,323 (GRCm39)	Q76*	probably null	Het
Zfp423	C	A	8: 88,508,662 (GRCm39)	V540F	possibly damaging	Het
Zfp644	T	C	5: 106,785,990 (GRCm39)	N186D	probably damaging	Het
Zfp647	G	A	15: 76,796,285 (GRCm39)	P125L	probably damaging	Het
Zfp787	G	A	7: 6,135,360 (GRCm39)	A297V	probably damaging	Het
Zfp827	G	T	8: 79,787,324 (GRCm39)	Q163H	probably damaging	Het
Zfp955b	T	A	17: 33,522,160 (GRCm39)	V543E	probably benign	Het

Other mutations in Slc25a19

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
Baggins	UTSW	11	115,508,386 (GRCm39)	missense	possibly damaging	0.91
rings	UTSW	11	115,506,377 (GRCm39)	missense	probably benign	0.14
BB001:Slc25a19	UTSW	11	115,506,376 (GRCm39)	missense	unknown
BB011:Slc25a19	UTSW	11	115,506,376 (GRCm39)	missense	unknown
PIT4498001:Slc25a19	UTSW	11	115,514,781 (GRCm39)	missense	possibly damaging	0.80
R0335:Slc25a19	UTSW	11	115,515,032 (GRCm39)	missense	probably damaging	1.00
R0398:Slc25a19	UTSW	11	115,508,401 (GRCm39)	missense	probably damaging	1.00
R0454:Slc25a19	UTSW	11	115,508,423 (GRCm39)	nonsense	probably null
R1614:Slc25a19	UTSW	11	115,507,449 (GRCm39)	nonsense	probably null
R3775:Slc25a19	UTSW	11	115,506,285 (GRCm39)	missense	probably damaging	1.00
R3776:Slc25a19	UTSW	11	115,506,285 (GRCm39)	missense	probably damaging	1.00
R5000:Slc25a19	UTSW	11	115,507,497 (GRCm39)	splice site	probably null
R5593:Slc25a19	UTSW	11	115,507,418 (GRCm39)	missense	probably damaging	1.00
R5738:Slc25a19	UTSW	11	115,515,060 (GRCm39)	missense	probably benign	0.24
R6167:Slc25a19	UTSW	11	115,506,377 (GRCm39)	missense	probably benign	0.14
R7014:Slc25a19	UTSW	11	115,511,792 (GRCm39)	missense	probably damaging	1.00
R7161:Slc25a19	UTSW	11	115,507,373 (GRCm39)	missense	possibly damaging	0.66
R7924:Slc25a19	UTSW	11	115,506,376 (GRCm39)	missense	unknown

Predicted Primers

PCR Primer
(F):5'- GGAAATATGCCTCCTTCTGGAAG -3'
(R):5'- CACAGGGTTCACTCACACTATG -3'

Sequencing Primer
(F):5'- TCCTTCTGGAAGCCCGG -3'
(R):5'- TACAAAGGCTTGACTCCC -3'

Posted On

2018-04-02