Mutagenetix > Incidental Mutation

Incidental Mutation 'R4994:Timd4'

385115

Institutional Source

Beutler Lab

Gene Symbol

Timd4

Ensembl Gene

ENSMUSG00000055546

Gene Name

T cell immunoglobulin and mucin domain containing 4

Synonyms

Tim4, B430010N18Rik, TIM-4

MMRRC Submission

042588-MU

Accession Numbers

Essential gene?

Probably non essential (E-score: 0.072) question?

Stock #

R4994 (G1)

Quality Score

225

Status

Validated

Chromosome

Chromosomal Location

46701627-46735159 bp(+) (GRCm39)

Type of Mutation

missense

DNA Base Change (assembly)

C to T at 46706344 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Arginine to Cysteine at position 49 (R49C)

Ref Sequence

ENSEMBL: ENSMUSP00000069456 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000068877]

AlphaFold

Q6U7R4

PDB Structure

Tim-4 [X-RAY DIFFRACTION]
Tim-4 in complex with sodium potassium tartrate [X-RAY DIFFRACTION]
Tim-4 in complex with phosphatidylserine [X-RAY DIFFRACTION]

Predicted Effect

probably damaging
Transcript: ENSMUST00000068877
AA Change: R49C

PolyPhen 2 Score 0.993 (Sensitivity: 0.70; Specificity: 0.97)

SMART Domains

Protein: ENSMUSP00000069456
Gene: ENSMUSG00000055546
AA Change: R49C

Domain	Start	End	E-Value	Type
low complexity region	5	19	N/A	INTRINSIC
IG	25	132	3.59e-5	SMART
low complexity region	135	182	N/A	INTRINSIC
low complexity region	248	271	N/A	INTRINSIC
transmembrane domain	279	301	N/A	INTRINSIC

Meta Mutation Damage Score

0.6467

Coding Region Coverage

1x: 99.2%
3x: 98.5%
10x: 96.8%
20x: 94.0%

Validation Efficiency

100% (79/79)

MGI Phenotype

PHENOTYPE: Mice homozygous for a knock-out allele exhibit impaired macrophage phagocytosis, altered macrophage physiology, and increased peritoneal lymphoid and meyloid cell numbers. [provided by MGI curators]

Allele List at MGI

Other mutations in this stock

Total: 76 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
1700030K09Rik	A	G	8: 73,208,962 (GRCm39)	E364G	probably benign	Het
4930505A04Rik	C	T	11: 30,376,349 (GRCm39)	V173M	probably damaging	Het
Abcb4	A	G	5: 8,978,524 (GRCm39)	T557A	probably damaging	Het
Acadm	C	T	3: 153,635,221 (GRCm39)	E298K	probably damaging	Het
Adrb3	T	C	8: 27,717,855 (GRCm39)		probably null	Het
Aldh1b1	A	G	4: 45,803,128 (GRCm39)	Y222C	possibly damaging	Het
Ankrd6	A	G	4: 32,860,387 (GRCm39)	Y19H	probably damaging	Het
Arhgap21	T	A	2: 20,854,701 (GRCm39)	T1554S	probably benign	Het
BC043934	T	C	9: 96,319,173 (GRCm39)		noncoding transcript	Het
Birc6	A	G	17: 74,901,319 (GRCm39)		probably benign	Het
Blm	A	C	7: 80,108,573 (GRCm39)	F1357C	probably benign	Het
Cd209a	T	C	8: 3,797,713 (GRCm39)		probably null	Het
Cdk7	G	A	13: 100,854,103 (GRCm39)	H129Y	probably damaging	Het
Clec14a	G	T	12: 58,315,070 (GRCm39)	P184Q	probably damaging	Het
Cma1	T	A	14: 56,179,128 (GRCm39)	I243F	probably damaging	Het
Cntnap3	G	T	13: 64,909,798 (GRCm39)	T769K	possibly damaging	Het
Col5a1	A	C	2: 27,922,751 (GRCm39)	K273T	possibly damaging	Het
Csnk1e	A	G	15: 79,309,129 (GRCm39)	Y266H	probably damaging	Het
Cyb5d1	A	G	11: 69,284,597 (GRCm39)	L185S	probably damaging	Het
Dennd5b	T	C	6: 148,942,998 (GRCm39)		probably null	Het
Dipk2a	C	A	9: 94,419,486 (GRCm39)	R148L	probably benign	Het
Drp2	G	A	X: 133,342,065 (GRCm39)	R567H	probably damaging	Homo
Dzank1	T	G	2: 144,364,486 (GRCm39)	D37A	probably damaging	Het
Echdc2	A	G	4: 108,022,825 (GRCm39)	I34V	probably benign	Het
Esm1	A	T	13: 113,349,965 (GRCm39)	R128S	probably benign	Het
Fbh1	T	A	2: 11,769,041 (GRCm39)	I251F	probably damaging	Het
Fbrsl1	A	G	5: 110,595,817 (GRCm39)	S73P	probably damaging	Het
Fbxo6	A	T	4: 148,233,948 (GRCm39)	S49R	probably damaging	Het
Gm17093	A	T	14: 44,756,779 (GRCm39)	Q82L	probably damaging	Het
Hmcn2	T	C	2: 31,348,067 (GRCm39)		probably null	Het
Hspa4l	C	A	3: 40,700,081 (GRCm39)		probably benign	Het
Il3ra	G	A	14: 14,351,080 (GRCm38)	A201T	probably benign	Het
Irx5	T	A	8: 93,087,409 (GRCm39)	V447E	probably damaging	Het
Kif14	G	T	1: 136,410,697 (GRCm39)	L668F	probably damaging	Het
Lag3	T	A	6: 124,881,416 (GRCm39)	R519W	unknown	Het
Lgr4	A	G	2: 109,842,283 (GRCm39)	N756S	probably damaging	Het
Lingo4	T	A	3: 94,310,308 (GRCm39)	H415Q	probably benign	Het
Lingo4	A	G	3: 94,309,848 (GRCm39)	H262R	probably benign	Het
Lkaaear1	C	A	2: 181,339,376 (GRCm39)	G25*	probably null	Het
Maco1	A	G	4: 134,555,610 (GRCm39)	Y288H	probably damaging	Het
Marf1	T	C	16: 13,932,095 (GRCm39)	K1641E	probably benign	Het
Mtfmt	T	C	9: 65,351,133 (GRCm39)		probably benign	Het
Mtif3	G	A	5: 146,893,598 (GRCm39)	T203M	probably benign	Het
Mycbp2	A	G	14: 103,407,430 (GRCm39)	I2740T	probably benign	Het
Nrdc	A	G	4: 108,903,809 (GRCm39)	T720A	probably benign	Het
Or2d2	T	C	7: 106,728,271 (GRCm39)	T110A	probably benign	Het
Peak1	T	A	9: 56,148,560 (GRCm39)	D32V	possibly damaging	Het
Pigr	G	A	1: 130,769,554 (GRCm39)	D122N	probably benign	Het
Plekhg3	A	G	12: 76,612,311 (GRCm39)	R391G	possibly damaging	Het
Ppfia3	T	C	7: 44,990,542 (GRCm39)	D919G	probably damaging	Het
Pramel23	T	A	4: 143,424,939 (GRCm39)	Q168L	possibly damaging	Het
Rnase2b	T	A	14: 51,400,208 (GRCm39)	D96E	possibly damaging	Het
Rsf1	CGGCGGC	CGGCGGCCGCGGCGGC	7: 97,229,130 (GRCm39)		probably benign	Het
Rsf1	G	GACGGCGGCT	7: 97,229,116 (GRCm39)		probably benign	Het
Serpina3f	A	G	12: 104,186,615 (GRCm39)	T394A	probably benign	Het
Six3	A	G	17: 85,928,720 (GRCm39)	N18S	possibly damaging	Het
Slc12a5	T	A	2: 164,825,285 (GRCm39)		probably null	Het
Slc35f6	A	G	5: 30,805,427 (GRCm39)	N21S	probably damaging	Het
Slc39a6	A	T	18: 24,729,351 (GRCm39)	I454N	probably damaging	Het
Slc40a1	T	A	1: 45,948,824 (GRCm39)	E485D	probably damaging	Het
Sort1	G	A	3: 108,235,385 (GRCm39)	C255Y	probably damaging	Het
Stab2	T	A	10: 86,785,771 (GRCm39)	T624S	probably benign	Het
Stk33	T	A	7: 108,939,605 (GRCm39)	I99L	probably benign	Het
Taf4b	T	A	18: 15,031,100 (GRCm39)	I828N	probably damaging	Het
Terf2	T	C	8: 107,803,110 (GRCm39)		probably benign	Het
Tpte	T	C	8: 22,808,362 (GRCm39)	S166P	probably benign	Het
Trabd2b	T	C	4: 114,264,052 (GRCm39)	L13P	probably benign	Het
Trappc11	A	T	8: 47,975,476 (GRCm39)	Y247*	probably null	Het
Trnt1	C	T	6: 106,755,853 (GRCm39)	Q303*	probably null	Het
Tspyl5	T	A	15: 33,687,201 (GRCm39)	Q248L	possibly damaging	Het
Ubxn7	A	T	16: 32,200,322 (GRCm39)	K337N	probably damaging	Het
Unc13a	T	A	8: 72,095,816 (GRCm39)	I1234F	probably benign	Het
Vmn1r127	A	T	7: 21,052,943 (GRCm39)	F282I	probably damaging	Het
Wdhd1	A	T	14: 47,506,111 (GRCm39)		probably null	Het
Zfp605	A	G	5: 110,275,352 (GRCm39)	K157E	probably damaging	Het
Zhx2	T	A	15: 57,684,755 (GRCm39)	D41E	probably benign	Het

Other mutations in Timd4

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL02140:Timd4	APN	11	46,710,841 (GRCm39)	missense	possibly damaging	0.61
IGL02247:Timd4	APN	11	46,706,558 (GRCm39)	missense	probably damaging	1.00
IGL02803:Timd4	APN	11	46,706,521 (GRCm39)	missense	probably damaging	1.00
IGL02991:Timd4	APN	11	46,732,974 (GRCm39)	splice site	probably benign
R0318:Timd4	UTSW	11	46,727,898 (GRCm39)	missense	probably benign	0.00
R0427:Timd4	UTSW	11	46,710,084 (GRCm39)	missense	probably benign	0.00
R1175:Timd4	UTSW	11	46,708,498 (GRCm39)	missense	probably damaging	1.00
R1185:Timd4	UTSW	11	46,708,475 (GRCm39)	missense	probably damaging	0.99
R1185:Timd4	UTSW	11	46,708,475 (GRCm39)	missense	probably damaging	0.99
R1185:Timd4	UTSW	11	46,708,475 (GRCm39)	missense	probably damaging	0.99
R1635:Timd4	UTSW	11	46,732,989 (GRCm39)	missense	possibly damaging	0.92
R2011:Timd4	UTSW	11	46,710,857 (GRCm39)	missense	possibly damaging	0.79
R2012:Timd4	UTSW	11	46,710,857 (GRCm39)	missense	possibly damaging	0.79
R5511:Timd4	UTSW	11	46,710,807 (GRCm39)	splice site	probably null
R5739:Timd4	UTSW	11	46,708,573 (GRCm39)	missense	probably benign	0.10
R5991:Timd4	UTSW	11	46,734,030 (GRCm39)	makesense	probably null
R6207:Timd4	UTSW	11	46,706,353 (GRCm39)	missense	probably damaging	0.98
R6863:Timd4	UTSW	11	46,706,270 (GRCm39)	nonsense	probably null
R7230:Timd4	UTSW	11	46,701,691 (GRCm39)	missense	probably benign	0.01
R7254:Timd4	UTSW	11	46,734,016 (GRCm39)	missense	probably benign	0.04
R7466:Timd4	UTSW	11	46,708,585 (GRCm39)	missense	probably benign	0.01
R7750:Timd4	UTSW	11	46,706,354 (GRCm39)	missense	probably damaging	1.00
R8777:Timd4	UTSW	11	46,706,309 (GRCm39)	missense	possibly damaging	0.49
R8777-TAIL:Timd4	UTSW	11	46,706,309 (GRCm39)	missense	possibly damaging	0.49

Predicted Primers

PCR Primer
(F):5'- TCCTGGACATTCCCGTTACG -3'
(R):5'- CTTGACATCATTGAACCAGCC -3'

Sequencing Primer
(F):5'- GGACATTCCCGTTACGTGTACAC -3'
(R):5'- AGGCACCTCTATACGGCAG -3'

Posted On

2016-05-10