Mutagenetix > Incidental Mutation

Incidental Mutation 'R7956:Lrch3'

649862

Institutional Source

Beutler Lab

Gene Symbol

Lrch3

Ensembl Gene

ENSMUSG00000022801

Gene Name

leucine-rich repeats and calponin homology (CH) domain containing 3

Synonyms

LOC385628, 2210409B11Rik

MMRRC Submission

046000-MU

Accession Numbers

Essential gene?

Probably non essential (E-score: 0.115) question?

Stock #

R7956 (G1)

Quality Score

225.009

Status

Validated

Chromosome

Chromosomal Location

32734470-32836017 bp(+) (GRCm39)

Type of Mutation

missense

DNA Base Change (assembly)

A to G at 32806377 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Methionine to Valine at position 454 (M454V)

Ref Sequence

ENSEMBL: ENSMUSP00000023491 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000023491] [ENSMUST00000135193] [ENSMUST00000165616] [ENSMUST00000165826] [ENSMUST00000170201] [ENSMUST00000170899]

AlphaFold

Q8BVU0

Predicted Effect

probably null
Transcript: ENSMUST00000023491
AA Change: M454V

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

SMART Domains

Protein: ENSMUSP00000023491
Gene: ENSMUSG00000022801
AA Change: M454V

Domain	Start	End	E-Value	Type
low complexity region	2	13	N/A	INTRINSIC
low complexity region	31	44	N/A	INTRINSIC
LRR	104	126	2.54e1	SMART
LRR	127	150	2.86e-1	SMART
LRR	172	194	4.44e0	SMART
LRR	195	218	4.33e1	SMART
LRR	240	263	2.76e1	SMART
low complexity region	482	493	N/A	INTRINSIC
low complexity region	539	554	N/A	INTRINSIC
CH	651	754	9.24e-15	SMART
low complexity region	759	774	N/A	INTRINSIC

Predicted Effect

probably null
Transcript: ENSMUST00000135193
AA Change: M454V

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

SMART Domains

Protein: ENSMUSP00000130708
Gene: ENSMUSG00000022801
AA Change: M454V

Domain	Start	End	E-Value	Type
low complexity region	2	13	N/A	INTRINSIC
low complexity region	31	44	N/A	INTRINSIC
LRR	104	126	2.54e1	SMART
LRR	127	150	2.86e-1	SMART
LRR	172	194	4.44e0	SMART
LRR	195	218	4.33e1	SMART
LRR	240	263	2.76e1	SMART
low complexity region	482	493	N/A	INTRINSIC
low complexity region	539	554	N/A	INTRINSIC
CH	651	755	6.79e-13	SMART
transmembrane domain	771	793	N/A	INTRINSIC

Predicted Effect

probably null
Transcript: ENSMUST00000142290
AA Change: M2V

SMART Domains

Protein: ENSMUSP00000117302
Gene: ENSMUSG00000022801
AA Change: M2V

Domain	Start	End	E-Value	Type
low complexity region	31	42	N/A	INTRINSIC
low complexity region	88	103	N/A	INTRINSIC
SCOP:d1h67a_	201	253	1e-11	SMART
Blast:CH	205	253	6e-27	BLAST

Predicted Effect

probably null
Transcript: ENSMUST00000163428
AA Change: M86V

SMART Domains

Protein: ENSMUSP00000133034
Gene: ENSMUSG00000022801
AA Change: M86V

Domain	Start	End	E-Value	Type
low complexity region	122	137	N/A	INTRINSIC
SCOP:d1h67a_	230	265	9e-5	SMART
Blast:CH	234	265	7e-14	BLAST

Predicted Effect

probably null
Transcript: ENSMUST00000165616
AA Change: M300V

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

SMART Domains

Protein: ENSMUSP00000130009
Gene: ENSMUSG00000022801
AA Change: M300V

Domain	Start	End	E-Value	Type
low complexity region	2	13	N/A	INTRINSIC
low complexity region	31	44	N/A	INTRINSIC
Blast:LRR	89	113	1e-6	BLAST
Blast:LRR	114	137	3e-7	BLAST
low complexity region	328	339	N/A	INTRINSIC
low complexity region	385	400	N/A	INTRINSIC
CH	497	600	9.24e-15	SMART
low complexity region	605	620	N/A	INTRINSIC

Predicted Effect

probably null
Transcript: ENSMUST00000165826
AA Change: M77V

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

SMART Domains

Protein: ENSMUSP00000126308
Gene: ENSMUSG00000022801
AA Change: M77V

Domain	Start	End	E-Value	Type
low complexity region	105	116	N/A	INTRINSIC
low complexity region	162	177	N/A	INTRINSIC

Predicted Effect

probably null
Transcript: ENSMUST00000170201
AA Change: M454V

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

SMART Domains

Protein: ENSMUSP00000126964
Gene: ENSMUSG00000022801
AA Change: M454V

Domain	Start	End	E-Value	Type
low complexity region	2	13	N/A	INTRINSIC
low complexity region	31	44	N/A	INTRINSIC
LRR	104	126	2.54e1	SMART
LRR	127	150	2.86e-1	SMART
LRR	172	194	4.44e0	SMART
LRR	195	218	4.33e1	SMART
LRR	240	263	2.76e1	SMART
low complexity region	482	493	N/A	INTRINSIC
low complexity region	539	554	N/A	INTRINSIC
CH	615	718	9.24e-15	SMART
low complexity region	723	738	N/A	INTRINSIC

Predicted Effect

probably null
Transcript: ENSMUST00000170899
AA Change: M454V

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

SMART Domains

Protein: ENSMUSP00000127547
Gene: ENSMUSG00000022801
AA Change: M454V

Domain	Start	End	E-Value	Type
low complexity region	2	13	N/A	INTRINSIC
low complexity region	31	44	N/A	INTRINSIC
LRR	104	126	2.54e1	SMART
LRR	127	150	2.86e-1	SMART
LRR	172	194	4.44e0	SMART
LRR	195	218	4.33e1	SMART
LRR	240	263	2.76e1	SMART
low complexity region	489	504	N/A	INTRINSIC
CH	565	668	9.24e-15	SMART
low complexity region	673	688	N/A	INTRINSIC

Meta Mutation Damage Score

0.9756

Coding Region Coverage

1x: 100.0%
3x: 100.0%
10x: 99.7%
20x: 99.1%

Validation Efficiency

100% (78/78)

Allele List at MGI

Other mutations in this stock

Total: 84 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
5031439G07Rik	T	C	15: 84,834,963 (GRCm39)	S332G	possibly damaging	Het
Acaca	A	T	11: 84,211,406 (GRCm39)	N1573Y	probably damaging	Het
Arhgef33	A	G	17: 80,662,477 (GRCm39)	K220R	possibly damaging	Het
Arsj	A	T	3: 126,232,151 (GRCm39)	D299V	probably damaging	Het
Asic3	A	C	5: 24,621,975 (GRCm39)	I412L	possibly damaging	Het
AU018091	A	T	7: 3,211,095 (GRCm39)	L278Q	probably benign	Het
Baat	A	T	4: 49,490,117 (GRCm39)	F322L	probably damaging	Het
Bap1	A	G	14: 30,977,525 (GRCm39)	Q280R	probably benign	Het
Bet1	T	C	6: 4,079,965 (GRCm39)	E66G	probably benign	Het
Brpf1	T	C	6: 113,297,493 (GRCm39)	S1000P	probably benign	Het
Ccdc78	A	T	17: 26,006,091 (GRCm39)	E86D	possibly damaging	Het
Ccdc88a	T	G	11: 29,413,892 (GRCm39)	L810R	probably damaging	Het
Cd209f	T	C	8: 4,154,859 (GRCm39)	T80A	probably benign	Het
Chrna7	T	G	7: 62,753,541 (GRCm39)	K326T	possibly damaging	Het
Cldn15	T	C	5: 137,003,504 (GRCm39)	S169P	probably damaging	Het
Cmklr2	T	C	1: 63,222,665 (GRCm39)	N190S	probably damaging	Het
Corin	A	G	5: 72,579,530 (GRCm39)	S281P	probably damaging	Het
Coro1a	A	G	7: 126,300,727 (GRCm39)	V200A	probably benign	Het
Crebrf	C	G	17: 26,961,631 (GRCm39)	P243A	probably benign	Het
Cxxc1	T	G	18: 74,352,054 (GRCm39)		probably null	Het
Dera	C	T	6: 137,813,826 (GRCm39)	T282M	probably benign	Het
Dnah12	A	T	14: 26,430,427 (GRCm39)	D345V	probably damaging	Het
Dop1b	T	C	16: 93,567,916 (GRCm39)		probably null	Het
Dst	T	A	1: 34,264,699 (GRCm39)	V2623E	probably damaging	Het
Dysf	T	C	6: 83,985,978 (GRCm39)	F28L	probably benign	Het
Eogt	C	A	6: 97,120,926 (GRCm39)	V96F	probably benign	Het
Exoc1	A	T	5: 76,705,704 (GRCm39)	T464S	probably benign	Het
Fam234a	A	G	17: 26,435,551 (GRCm39)	Y278H	probably damaging	Het
Gatd3a	T	C	10: 77,999,405 (GRCm39)		probably null	Het
Gne	T	A	4: 44,044,962 (GRCm39)	I391L	probably benign	Het
Gpr22	G	T	12: 31,759,219 (GRCm39)	T301K	possibly damaging	Het
Gria1	A	G	11: 57,080,626 (GRCm39)	D203G	possibly damaging	Het
Grin2c	T	C	11: 115,140,974 (GRCm39)	E1048G	probably benign	Het
Hcn4	A	G	9: 58,751,456 (GRCm39)	T361A	unknown	Het
Herc2	T	C	7: 55,763,148 (GRCm39)	S918P	probably damaging	Het
Hr	A	G	14: 70,797,327 (GRCm39)	E520G	probably benign	Het
Idi1	T	G	13: 8,937,996 (GRCm39)	S147R	possibly damaging	Het
Irf9	G	A	14: 55,846,481 (GRCm39)	G464E	probably benign	Het
Kif16b	T	C	2: 142,704,390 (GRCm39)	Y63C	probably benign	Het
Klhl31	A	T	9: 77,557,903 (GRCm39)	E206D	probably benign	Het
Lrp1b	A	C	2: 41,172,161 (GRCm39)		probably null	Het
Lyst	A	G	13: 13,815,788 (GRCm39)	D1224G	possibly damaging	Het
Maf1	T	A	15: 76,236,696 (GRCm39)	F9L	probably benign	Het
Mllt10	T	A	2: 18,175,068 (GRCm39)	I542N	probably benign	Het
Mrpl19	T	C	6: 81,940,962 (GRCm39)	N143S	probably benign	Het
Myo5c	A	G	9: 75,159,845 (GRCm39)	N291S	probably benign	Het
Myocd	G	T	11: 65,160,494 (GRCm39)	L11M	possibly damaging	Het
Or2ag2	G	A	7: 106,485,178 (GRCm39)	T282I	possibly damaging	Het
Or5ac20	C	A	16: 59,104,856 (GRCm39)	M1I	probably null	Het
Or5an10	A	C	19: 12,275,666 (GRCm39)	F277V	probably damaging	Het
Otogl	T	C	10: 107,713,887 (GRCm39)	I511V	possibly damaging	Het
Phf19	T	C	2: 34,796,567 (GRCm39)	Y121C	possibly damaging	Het
Pik3c2a	T	C	7: 115,949,350 (GRCm39)	T1346A	probably benign	Het
Pira1	C	G	7: 3,740,319 (GRCm39)	A301P	probably damaging	Het
Polr2b	A	G	5: 77,468,092 (GRCm39)	T131A	probably benign	Het
Pom121	T	C	5: 135,412,815 (GRCm39)	T456A	unknown	Het
Pom121l2	T	C	13: 22,167,316 (GRCm39)	L529S	probably damaging	Het
Prss34	A	G	17: 25,518,553 (GRCm39)	I214V	probably benign	Het
Prss42	A	G	9: 110,628,402 (GRCm39)	Y182C	probably damaging	Het
Rapgef1	A	G	2: 29,589,027 (GRCm39)	I223V	probably benign	Het
Rbbp6	C	T	7: 122,600,561 (GRCm39)	P1523S	unknown	Het
Ripk1	T	G	13: 34,193,666 (GRCm39)	N9K	probably benign	Het
Six4	A	G	12: 73,150,535 (GRCm39)	L670S	possibly damaging	Het
Skint6	C	T	4: 112,703,894 (GRCm39)	D994N	possibly damaging	Het
Slc18a1	T	C	8: 69,491,466 (GRCm39)	D516G	probably benign	Het
Slc35g3	A	T	11: 69,651,623 (GRCm39)	Y121N	probably damaging	Het
Slc41a1	T	G	1: 131,771,766 (GRCm39)	S393R	possibly damaging	Het
Smg7	T	C	1: 152,719,953 (GRCm39)	H818R	probably benign	Het
Sorl1	A	G	9: 41,900,655 (GRCm39)	Y1686H	probably damaging	Het
Stab1	G	T	14: 30,881,981 (GRCm39)	T521K	probably benign	Het
Stard9	T	A	2: 120,535,852 (GRCm39)	Y4036*	probably null	Het
Tek	T	G	4: 94,687,580 (GRCm39)		probably null	Het
Tex35	C	T	1: 156,927,742 (GRCm39)	D143N	probably damaging	Het
Tgm1	T	A	14: 55,946,352 (GRCm39)	H428L	probably benign	Het
Tigd3	G	A	19: 5,942,594 (GRCm39)	P179S	possibly damaging	Het
Tnip3	T	A	6: 65,591,779 (GRCm39)		probably null	Het
Ttc1	A	G	11: 43,627,240 (GRCm39)		probably null	Het
Utp20	C	T	10: 88,618,476 (GRCm39)	E1175K	probably benign	Het
Vmn1r151	A	T	7: 22,199,085 (GRCm39)	S7T	possibly damaging	Het
Vmn1r34	T	A	6: 66,614,777 (GRCm39)		probably benign	Het
Vmn2r74	A	T	7: 85,605,166 (GRCm39)	M494K	probably benign	Het
Vps26c	T	C	16: 94,302,505 (GRCm39)	N234D	probably damaging	Het
Vsig10l	T	C	7: 43,117,494 (GRCm39)	S594P	probably benign	Het
Zfp937	A	G	2: 150,081,076 (GRCm39)	S369G	probably benign	Het

Other mutations in Lrch3

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL01129:Lrch3	APN	16	32,815,335 (GRCm39)	missense	probably benign	0.10
IGL01400:Lrch3	APN	16	32,799,911 (GRCm39)	missense	probably damaging	1.00
IGL02565:Lrch3	APN	16	32,826,084 (GRCm39)	missense	probably benign	0.00
IGL03076:Lrch3	APN	16	32,802,223 (GRCm39)	missense	possibly damaging	0.52
IGL03103:Lrch3	APN	16	32,772,507 (GRCm39)	missense	probably damaging	1.00
IGL03125:Lrch3	APN	16	32,734,647 (GRCm39)	missense	possibly damaging	0.83
IGL03349:Lrch3	APN	16	32,775,694 (GRCm39)	missense	probably damaging	1.00
eluted	UTSW	16	32,806,377 (GRCm39)	missense	probably null
leached	UTSW	16	32,779,833 (GRCm39)	missense	probably damaging	1.00
R0054:Lrch3	UTSW	16	32,816,222 (GRCm39)	intron	probably benign
R0123:Lrch3	UTSW	16	32,782,124 (GRCm39)	splice site	probably benign
R0225:Lrch3	UTSW	16	32,782,124 (GRCm39)	splice site	probably benign
R0326:Lrch3	UTSW	16	32,799,870 (GRCm39)	missense	probably damaging	1.00
R0455:Lrch3	UTSW	16	32,807,250 (GRCm39)	missense	probably damaging	0.99
R0734:Lrch3	UTSW	16	32,817,853 (GRCm39)	nonsense	probably null
R1204:Lrch3	UTSW	16	32,829,584 (GRCm39)	missense	probably damaging	1.00
R1470:Lrch3	UTSW	16	32,808,865 (GRCm39)	splice site	probably benign
R1526:Lrch3	UTSW	16	32,770,746 (GRCm39)	missense	probably damaging	1.00
R1597:Lrch3	UTSW	16	32,770,781 (GRCm39)	nonsense	probably null
R1850:Lrch3	UTSW	16	32,807,163 (GRCm39)	missense	probably benign	0.01
R1966:Lrch3	UTSW	16	32,734,755 (GRCm39)	missense	possibly damaging	0.94
R2241:Lrch3	UTSW	16	32,816,211 (GRCm39)	missense	probably damaging	0.99
R2313:Lrch3	UTSW	16	32,782,045 (GRCm39)	missense	probably damaging	1.00
R2902:Lrch3	UTSW	16	32,770,766 (GRCm39)	missense	probably damaging	1.00
R4723:Lrch3	UTSW	16	32,808,854 (GRCm39)	splice site	probably null
R4795:Lrch3	UTSW	16	32,826,074 (GRCm39)	missense	probably damaging	1.00
R4970:Lrch3	UTSW	16	32,818,883 (GRCm39)	missense	probably damaging	1.00
R5223:Lrch3	UTSW	16	32,734,767 (GRCm39)	missense	probably damaging	0.99
R5292:Lrch3	UTSW	16	32,796,177 (GRCm39)	missense	probably damaging	1.00
R5414:Lrch3	UTSW	16	32,806,335 (GRCm39)	splice site	probably null
R5470:Lrch3	UTSW	16	32,818,960 (GRCm39)	missense	probably damaging	1.00
R5594:Lrch3	UTSW	16	32,734,554 (GRCm39)	missense	probably damaging	0.99
R5843:Lrch3	UTSW	16	32,818,896 (GRCm39)	missense	probably damaging	1.00
R5862:Lrch3	UTSW	16	32,816,179 (GRCm39)	missense	probably damaging	1.00
R5911:Lrch3	UTSW	16	32,779,833 (GRCm39)	missense	probably damaging	1.00
R5932:Lrch3	UTSW	16	32,796,106 (GRCm39)	missense	probably damaging	1.00
R6519:Lrch3	UTSW	16	32,815,367 (GRCm39)	critical splice donor site	probably benign
R6731:Lrch3	UTSW	16	32,770,790 (GRCm39)	missense	probably damaging	1.00
R7182:Lrch3	UTSW	16	32,814,149 (GRCm39)	missense	probably benign	0.05
R7197:Lrch3	UTSW	16	32,810,665 (GRCm39)	missense	probably damaging	1.00
R7319:Lrch3	UTSW	16	32,815,363 (GRCm39)	missense	probably benign	0.19
R7392:Lrch3	UTSW	16	32,807,125 (GRCm39)	nonsense	probably null
R7408:Lrch3	UTSW	16	32,807,113 (GRCm39)	nonsense	probably null
R7414:Lrch3	UTSW	16	32,818,883 (GRCm39)	missense	probably damaging	1.00
R7425:Lrch3	UTSW	16	32,826,077 (GRCm39)	missense	probably damaging	1.00
R7909:Lrch3	UTSW	16	32,829,663 (GRCm39)	missense	probably benign	0.00
R8009:Lrch3	UTSW	16	32,826,083 (GRCm39)	missense	possibly damaging	0.72
R8247:Lrch3	UTSW	16	32,829,713 (GRCm39)	nonsense	probably null
R8408:Lrch3	UTSW	16	32,775,750 (GRCm39)	missense	probably damaging	1.00
R8686:Lrch3	UTSW	16	32,802,223 (GRCm39)	missense	possibly damaging	0.52
R8756:Lrch3	UTSW	16	32,808,810 (GRCm39)	missense	probably benign	0.33
R8947:Lrch3	UTSW	16	32,802,199 (GRCm39)	missense	possibly damaging	0.66
R9459:Lrch3	UTSW	16	32,799,775 (GRCm39)	missense	probably damaging	0.99
R9710:Lrch3	UTSW	16	32,796,108 (GRCm39)	nonsense	probably null
Z1176:Lrch3	UTSW	16	32,734,686 (GRCm39)	missense	possibly damaging	0.89

Predicted Primers

PCR Primer
(F):5'- AGGCCTGGGATTTAATGTAAGTTC -3'
(R):5'- GCCATCCTAGCTTAGCAAAATC -3'

Sequencing Primer
(F):5'- CTGGGATTTAATGTAAGTTCTAGGGC -3'
(R):5'- ACACCTTTAATCTCAGCACTTGGG -3'

Posted On

2020-09-15