Mutagenetix > Incidental Mutation

Incidental Mutation 'R1864:Lgr4'

208452

Institutional Source

Beutler Lab

Gene Symbol

Lgr4

Ensembl Gene

ENSMUSG00000050199

Gene Name

leucine-rich repeat-containing G protein-coupled receptor 4

Synonyms

Gpr48, A330106J01Rik, A930009A08Rik

MMRRC Submission

039887-MU

Accession Numbers

Essential gene?

Essential (E-score: 1.000) question?

Stock #

R1864 (G1)

Quality Score

225

Status

Not validated

Chromosome

Chromosomal Location

109747992-109844602 bp(+) (GRCm39)

Type of Mutation

missense

DNA Base Change (assembly)

T to A at 109841742 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Phenylalanine to Isoleucine at position 576 (F576I)

Ref Sequence

ENSEMBL: ENSMUSP00000047325 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000046548] [ENSMUST00000111037]

AlphaFold

A2ARI4

Predicted Effect

possibly damaging
Transcript: ENSMUST00000046548
AA Change: F576I

PolyPhen 2 Score 0.933 (Sensitivity: 0.80; Specificity: 0.94)

SMART Domains

Protein: ENSMUSP00000047325
Gene: ENSMUSG00000050199
AA Change: F576I

Domain	Start	End	E-Value	Type
signal peptide	1	24	N/A	INTRINSIC
LRRNT	28	61	6.68e-6	SMART
LRR	55	79	1.49e1	SMART
LRR	80	103	1.99e0	SMART
LRR_TYP	104	127	2.75e-3	SMART
LRR_TYP	128	151	2.79e-4	SMART
LRR	152	175	2.54e1	SMART
LRR	176	199	4.65e-1	SMART
LRR_TYP	200	223	1.04e-3	SMART
LRR	224	246	6.4e0	SMART
LRR_TYP	247	270	5.99e-4	SMART
LRR	272	294	9.77e1	SMART
LRR	318	341	3e1	SMART
LRR	343	363	4.71e1	SMART
LRR	364	387	1.49e1	SMART
LRR_TYP	388	411	1.15e-5	SMART
LRR	412	435	3.98e1	SMART
low complexity region	500	516	N/A	INTRINSIC
Pfam:7tm_1	555	801	2.7e-10	PFAM
low complexity region	824	837	N/A	INTRINSIC
low complexity region	910	924	N/A	INTRINSIC

Predicted Effect

possibly damaging
Transcript: ENSMUST00000111037
AA Change: F552I

PolyPhen 2 Score 0.683 (Sensitivity: 0.86; Specificity: 0.92)

SMART Domains

Protein: ENSMUSP00000106666
Gene: ENSMUSG00000050199
AA Change: F552I

Domain	Start	End	E-Value	Type
signal peptide	1	24	N/A	INTRINSIC
LRRNT	28	61	6.68e-6	SMART
LRR	55	79	9.77e1	SMART
LRR_TYP	80	103	2.75e-3	SMART
LRR_TYP	104	127	2.79e-4	SMART
LRR	128	151	2.54e1	SMART
LRR	152	175	4.65e-1	SMART
LRR_TYP	176	199	1.04e-3	SMART
LRR	200	222	6.4e0	SMART
LRR_TYP	223	246	5.99e-4	SMART
LRR	248	270	9.77e1	SMART
LRR	294	317	3e1	SMART
LRR	319	339	4.71e1	SMART
LRR	340	363	1.49e1	SMART
LRR_TYP	364	387	1.15e-5	SMART
LRR	388	411	3.98e1	SMART
low complexity region	476	492	N/A	INTRINSIC
Pfam:7tm_1	531	777	9.3e-17	PFAM
low complexity region	800	813	N/A	INTRINSIC
low complexity region	886	900	N/A	INTRINSIC

Coding Region Coverage

1x: 97.3%
3x: 96.7%
10x: 95.1%
20x: 92.1%

Validation Efficiency

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 a G-protein coupled receptor that binds R-spondins and activates the Wnt signaling pathway. This Wnt signaling pathway activation is necessary for proper development of many organs of the body. [provided by RefSeq, Oct 2016]
PHENOTYPE: Homozygotes for a knock-out allele show embryonic and perinatal death, open eyelids, and abnormal renal development. One gene trap mutation leads to reduced body weight, sterility, and impaired male reproductive tract development. Another gene trap mutation causes ocular anterior segment anomalies. [provided by MGI curators]

Allele List at MGI

Other mutations in this stock

Total: 112 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
Adgrg2	G	A	X: 159,265,347 (GRCm39)	M532I	probably benign	Het
Agtpbp1	A	G	13: 59,598,016 (GRCm39)	Y1198H	possibly damaging	Het
Ahcyl2	G	A	6: 29,908,354 (GRCm39)	V575M	probably damaging	Het
Akp3	TCACCACCACCACCACCACCACCACCACCAC	TCACCACCACCACCACCACCACCACCAC	1: 87,055,489 (GRCm39)		probably benign	Het
Ankrd50	A	T	3: 38,508,610 (GRCm39)	N329K	probably benign	Het
Ano4	C	A	10: 88,807,253 (GRCm39)	G741V	probably damaging	Het
Anxa1	T	C	19: 20,357,053 (GRCm39)	D191G	probably benign	Het
Apc2	C	T	10: 80,149,482 (GRCm39)	T1512I	probably damaging	Het
Aph1b	A	T	9: 66,701,395 (GRCm39)	C81S	probably benign	Het
Arhgap21	T	C	2: 20,866,015 (GRCm39)	E893G	probably damaging	Het
Arhgef28	A	T	13: 98,130,640 (GRCm39)	H399Q	probably benign	Het
Asic5	A	G	3: 81,919,294 (GRCm39)	E304G	probably benign	Het
B4galnt4	A	G	7: 140,650,446 (GRCm39)	Y771C	probably damaging	Het
Birc2	G	T	9: 7,819,518 (GRCm39)	Q465K	probably benign	Het
Btla	C	T	16: 45,070,737 (GRCm39)	T232I	probably damaging	Het
Ccl7	G	T	11: 81,937,378 (GRCm39)	K37N	probably benign	Het
Cdk17	T	C	10: 93,061,967 (GRCm39)	V233A	probably damaging	Het
Cenatac	A	G	9: 44,329,018 (GRCm39)	C66R	probably damaging	Het
Cilp2	C	A	8: 70,333,973 (GRCm39)	Q1008H	probably damaging	Het
Clcn1	T	A	6: 42,282,475 (GRCm39)	D442E	probably damaging	Het
Clcnka	T	C	4: 141,120,113 (GRCm39)	T269A	probably damaging	Het
Col12a1	A	T	9: 79,534,385 (GRCm39)		probably null	Het
Cts6	A	G	13: 61,349,393 (GRCm39)	I105T	probably benign	Het
Cyp3a25	T	C	5: 145,931,739 (GRCm39)	D123G	probably damaging	Het
D630003M21Rik	A	T	2: 158,045,105 (GRCm39)	L808Q	probably damaging	Het
Ddrgk1	A	T	2: 130,496,215 (GRCm39)	I270N	probably damaging	Het
Dhx15	T	C	5: 52,342,043 (GRCm39)	T92A	possibly damaging	Het
Dhx32	A	T	7: 133,339,025 (GRCm39)	C197S	probably benign	Het
Diaph2	G	A	X: 128,860,876 (GRCm39)	R473Q	probably damaging	Het
Dnd1	A	G	18: 36,899,057 (GRCm39)	C11R	possibly damaging	Het
Dock1	A	C	7: 134,748,236 (GRCm39)	D1566A	probably benign	Het
Drp2	A	G	X: 133,327,864 (GRCm39)	I43V	probably benign	Het
Ecm2	T	C	13: 49,683,621 (GRCm39)	V533A	probably benign	Het
Ecpas	T	A	4: 58,849,942 (GRCm39)	H427L	possibly damaging	Het
Emilin1	A	G	5: 31,075,934 (GRCm39)	E725G	probably damaging	Het
Eml2	A	G	7: 18,935,803 (GRCm39)	Y487C	probably damaging	Het
Epg5	T	A	18: 78,018,246 (GRCm39)	L919H	probably damaging	Het
Fam187a	T	A	11: 102,776,837 (GRCm39)	S214T	probably damaging	Het
Flna	T	C	X: 73,283,869 (GRCm39)	T521A	probably benign	Het
Foxi1	T	A	11: 34,157,531 (GRCm39)	I165F	probably damaging	Het
Fxr2	A	T	11: 69,543,103 (GRCm39)	K633N	probably benign	Het
Gdpd5	T	C	7: 99,098,206 (GRCm39)	I209T	probably benign	Het
Gmpr	G	T	13: 45,696,101 (GRCm39)	V278F	probably damaging	Het
Grm7	A	T	6: 111,057,384 (GRCm39)	D328V	probably benign	Het
Heatr6	T	C	11: 83,660,056 (GRCm39)	S534P	probably damaging	Het
Heph	A	G	X: 95,573,092 (GRCm39)	T792A	probably damaging	Het
Hipk2	T	A	6: 38,695,870 (GRCm39)		probably null	Het
Hps3	T	A	3: 20,074,123 (GRCm39)		probably null	Het
Hspa5	T	C	2: 34,664,553 (GRCm39)	F336L	probably damaging	Het
Insc	T	C	7: 114,441,413 (GRCm39)	I409T	probably benign	Het
Kcnj8	T	A	6: 142,515,966 (GRCm39)	H47L	probably damaging	Het
Kcnma1	T	A	14: 23,853,230 (GRCm39)	Q108L	probably damaging	Het
Klc3	A	G	7: 19,131,966 (GRCm39)	V137A	probably damaging	Het
Lcn2	T	C	2: 32,275,434 (GRCm39)	T194A	possibly damaging	Het
Lypd6b	A	G	2: 49,837,459 (GRCm39)	I144V	possibly damaging	Het
Mctp1	G	A	13: 76,533,267 (GRCm39)	C205Y	possibly damaging	Het
Mitf	A	T	6: 97,987,383 (GRCm39)	N159I	probably damaging	Het
Morc1	T	C	16: 48,412,893 (GRCm39)	I678T	probably benign	Het
Muc4	A	G	16: 32,576,625 (GRCm39)		probably benign	Het
Myo7a	T	C	7: 97,701,463 (GRCm39)	Y2115C	probably damaging	Het
Myof	T	C	19: 37,975,153 (GRCm39)	I182V	probably benign	Het
Ncor1	A	G	11: 62,272,245 (GRCm39)	V635A	probably damaging	Het
Neb	G	T	2: 52,102,772 (GRCm39)	Y4257*	probably null	Het
Npr2	T	A	4: 43,641,258 (GRCm39)	V428E	probably benign	Het
Nufip2	A	G	11: 77,583,124 (GRCm39)	D346G	probably damaging	Het
Obsl1	G	A	1: 75,469,753 (GRCm39)	S1088F	probably benign	Het
Or10s1	T	G	9: 39,986,081 (GRCm39)	I163M	possibly damaging	Het
Or2ag1	T	C	7: 106,313,030 (GRCm39)	N286S	possibly damaging	Het
Or4c127	T	A	2: 89,832,825 (GRCm39)	V25E	probably benign	Het
Or4k38	C	T	2: 111,166,052 (GRCm39)	V124M	possibly damaging	Het
Or5ac22	A	G	16: 59,135,378 (GRCm39)	Y131H	probably damaging	Het
Or8b9	T	A	9: 37,766,560 (GRCm39)	Y149N	probably damaging	Het
Pdgfrb	G	A	18: 61,204,789 (GRCm39)	V550I	probably benign	Het
Pi4ka	A	T	16: 17,185,389 (GRCm39)	L237*	probably null	Het
Pla2r1	G	A	2: 60,259,055 (GRCm39)	T1111M	probably benign	Het
Plxnd1	A	T	6: 115,946,402 (GRCm39)		probably null	Het
Pnp	G	C	14: 51,185,430 (GRCm39)	A67P	probably benign	Het
Ppp1r3a	A	T	6: 14,718,404 (GRCm39)	S837T	probably damaging	Het
Ppp2r5e	C	G	12: 75,516,341 (GRCm39)	A239P	probably damaging	Het
Prom2	T	C	2: 127,381,707 (GRCm39)	D203G	probably benign	Het
Pum1	T	C	4: 130,478,836 (GRCm39)	V486A	possibly damaging	Het
Rnf115	A	G	3: 96,635,153 (GRCm39)		probably benign	Het
Rsf1	ATGGCG	ATGGCGACGGTGGCG	7: 97,229,111 (GRCm39)		probably benign	Het
Rusc2	C	A	4: 43,421,719 (GRCm39)	A713D	possibly damaging	Het
Ryr3	A	T	2: 112,560,673 (GRCm39)	H3009Q	possibly damaging	Het
Serpina1d	C	A	12: 103,734,256 (GRCm39)	C16F	probably benign	Het
Serpinf2	G	T	11: 75,328,309 (GRCm39)	R80S	possibly damaging	Het
Sh2d4a	C	A	8: 68,781,967 (GRCm39)	Q192K	probably benign	Het
Sh3d21	T	A	4: 126,044,729 (GRCm39)		probably null	Het
Sh3rf2	T	A	18: 42,187,046 (GRCm39)	L55Q	probably damaging	Het
Shc4	T	C	2: 125,481,287 (GRCm39)	D255G	probably damaging	Het
Skint2	T	A	4: 112,483,106 (GRCm39)	H170Q	probably benign	Het
Slc29a4	A	G	5: 142,703,509 (GRCm39)	Y261C	probably damaging	Het
Slc35a5	A	T	16: 44,964,071 (GRCm39)	N102K	possibly damaging	Het
Slc38a3	A	T	9: 107,533,152 (GRCm39)	I307K	probably damaging	Het
Sv2b	A	T	7: 74,773,828 (GRCm39)	S548T	probably benign	Het
Tgfbi	T	C	13: 56,780,694 (GRCm39)	S524P	probably benign	Het
Tgm5	T	C	2: 120,905,699 (GRCm39)	D152G	probably damaging	Het
Tmem213	A	G	6: 38,086,487 (GRCm39)	T48A	possibly damaging	Het
Tmem37	A	G	1: 119,995,952 (GRCm39)	S42P	probably damaging	Het
Trpm1	A	G	7: 63,917,764 (GRCm39)	K1258R	probably damaging	Het
Ttc22	T	C	4: 106,494,003 (GRCm39)	V321A	probably benign	Het
Ube2c	C	A	2: 164,611,943 (GRCm39)	A15E	probably benign	Het
Ubn2	T	A	6: 38,417,425 (GRCm39)	D154E	possibly damaging	Het
Umod	A	T	7: 119,062,478 (GRCm39)	L631M	probably damaging	Het
Ush1c	G	A	7: 45,868,816 (GRCm39)	Q373*	probably null	Het
Vmn1r238	T	A	18: 3,123,040 (GRCm39)	R125*	probably null	Het
Wnt8b	T	C	19: 44,482,029 (GRCm39)	L14P	probably benign	Het
Wrn	G	A	8: 33,778,892 (GRCm39)	A563V	probably damaging	Het
Zfp268	A	T	4: 145,348,998 (GRCm39)	Q145L	possibly damaging	Het
Zfp608	A	G	18: 55,030,983 (GRCm39)	S986P	probably benign	Het
Znrf3	T	C	11: 5,233,373 (GRCm39)	H228R	possibly damaging	Het

Other mutations in Lgr4

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL02043:Lgr4	APN	2	109,841,635 (GRCm39)	missense	probably damaging	1.00
IGL02247:Lgr4	APN	2	109,838,420 (GRCm39)	splice site	probably benign
IGL02247:Lgr4	APN	2	109,832,846 (GRCm39)	missense	probably benign
IGL02302:Lgr4	APN	2	109,832,841 (GRCm39)	missense	probably damaging	0.99
IGL02309:Lgr4	APN	2	109,842,880 (GRCm39)	utr 3 prime	probably benign
IGL02511:Lgr4	APN	2	109,841,617 (GRCm39)	missense	probably benign	0.06
IGL02604:Lgr4	APN	2	109,841,658 (GRCm39)	missense	probably damaging	1.00
IGL02648:Lgr4	APN	2	109,842,718 (GRCm39)	missense	probably damaging	1.00
IGL02795:Lgr4	APN	2	109,838,555 (GRCm39)	splice site	probably benign
IGL02899:Lgr4	APN	2	109,748,598 (GRCm39)	missense	probably damaging	0.99
R0003:Lgr4	UTSW	2	109,828,010 (GRCm39)	critical splice donor site	probably null
R0200:Lgr4	UTSW	2	109,801,035 (GRCm39)	critical splice acceptor site	probably null
R0314:Lgr4	UTSW	2	109,821,438 (GRCm39)	splice site	probably benign
R0482:Lgr4	UTSW	2	109,838,437 (GRCm39)	missense	probably damaging	1.00
R0491:Lgr4	UTSW	2	109,837,626 (GRCm39)	splice site	probably benign
R0517:Lgr4	UTSW	2	109,841,665 (GRCm39)	missense	probably damaging	1.00
R0546:Lgr4	UTSW	2	109,829,766 (GRCm39)	missense	probably damaging	0.98
R0658:Lgr4	UTSW	2	109,842,132 (GRCm39)	missense	possibly damaging	0.83
R1367:Lgr4	UTSW	2	109,821,480 (GRCm39)	missense	probably damaging	0.98
R1977:Lgr4	UTSW	2	109,842,273 (GRCm39)	missense	probably damaging	1.00
R2239:Lgr4	UTSW	2	109,842,738 (GRCm39)	missense	probably damaging	1.00
R2380:Lgr4	UTSW	2	109,842,738 (GRCm39)	missense	probably damaging	1.00
R2383:Lgr4	UTSW	2	109,830,960 (GRCm39)	missense	probably damaging	1.00
R2997:Lgr4	UTSW	2	109,833,862 (GRCm39)	missense	probably benign	0.30
R3707:Lgr4	UTSW	2	109,801,099 (GRCm39)	missense	probably damaging	0.99
R3803:Lgr4	UTSW	2	109,838,542 (GRCm39)	missense	probably benign	0.10
R3804:Lgr4	UTSW	2	109,838,542 (GRCm39)	missense	probably benign	0.10
R3843:Lgr4	UTSW	2	109,827,118 (GRCm39)	splice site	probably benign
R4030:Lgr4	UTSW	2	109,820,096 (GRCm39)	missense	probably benign	0.06
R4513:Lgr4	UTSW	2	109,842,361 (GRCm39)	missense	possibly damaging	0.93
R4777:Lgr4	UTSW	2	109,827,027 (GRCm39)	missense	probably damaging	0.98
R4912:Lgr4	UTSW	2	109,836,847 (GRCm39)	critical splice acceptor site	probably null
R4994:Lgr4	UTSW	2	109,842,283 (GRCm39)	missense	probably damaging	0.99
R5106:Lgr4	UTSW	2	109,827,940 (GRCm39)	missense	probably damaging	0.97
R5131:Lgr4	UTSW	2	109,842,678 (GRCm39)	missense	probably benign
R5152:Lgr4	UTSW	2	109,830,948 (GRCm39)	missense	probably damaging	1.00
R5753:Lgr4	UTSW	2	109,832,857 (GRCm39)	nonsense	probably null
R5860:Lgr4	UTSW	2	109,821,496 (GRCm39)	missense	probably damaging	0.96
R5914:Lgr4	UTSW	2	109,748,617 (GRCm39)	missense	possibly damaging	0.78
R6145:Lgr4	UTSW	2	109,837,588 (GRCm39)	nonsense	probably null
R6263:Lgr4	UTSW	2	109,842,243 (GRCm39)	missense	possibly damaging	0.95
R6400:Lgr4	UTSW	2	109,821,478 (GRCm39)	missense	probably damaging	0.98
R6924:Lgr4	UTSW	2	109,842,784 (GRCm39)	missense	probably damaging	1.00
R7171:Lgr4	UTSW	2	109,831,314 (GRCm39)	missense	probably benign	0.11
R7326:Lgr4	UTSW	2	109,826,974 (GRCm39)	nonsense	probably null
R7593:Lgr4	UTSW	2	109,829,801 (GRCm39)	missense	probably damaging	1.00
R7659:Lgr4	UTSW	2	109,827,111 (GRCm39)	missense	probably damaging	1.00
R7707:Lgr4	UTSW	2	109,827,936 (GRCm39)	critical splice acceptor site	probably null
R7936:Lgr4	UTSW	2	109,836,863 (GRCm39)	missense	probably damaging	1.00
R7940:Lgr4	UTSW	2	109,836,858 (GRCm39)	missense	probably damaging	1.00
R8062:Lgr4	UTSW	2	109,831,282 (GRCm39)	missense	probably damaging	1.00
R8153:Lgr4	UTSW	2	109,830,645 (GRCm39)	missense	probably damaging	0.99
R9225:Lgr4	UTSW	2	109,842,485 (GRCm39)	missense	probably benign
R9434:Lgr4	UTSW	2	109,836,907 (GRCm39)	missense	probably benign
R9557:Lgr4	UTSW	2	109,827,084 (GRCm39)	missense	probably damaging	1.00
X0053:Lgr4	UTSW	2	109,841,782 (GRCm39)	missense	possibly damaging	0.52

Predicted Primers

PCR Primer
(F):5'- CGCTTATCACCAGACCATAATATTCAG -3'
(R):5'- TAACAGGAATACGGCGCTCTC -3'

Sequencing Primer
(F):5'- CACCAGACCATAATATTCAGTGTTC -3'
(R):5'- TCTCTGAGGAGAAGACTGCC -3'

Posted On

2014-06-30