Mutagenetix > Incidental Mutation

Incidental Mutation 'R0317:Lysmd4'

25452

Institutional Source

Beutler Lab

Gene Symbol

Lysmd4

Ensembl Gene

ENSMUSG00000043831

Gene Name

LysM, putative peptidoglycan-binding, domain containing 4

Synonyms

4930506D23Rik

MMRRC Submission

038527-MU

Accession Numbers

Essential gene?

Probably non essential (E-score: 0.063) question?

Stock #

R0317 (G1)

Quality Score

225

Status

Not validated

Chromosome

Chromosomal Location

66872292-66878216 bp(+) (GRCm39)

Type of Mutation

missense

DNA Base Change (assembly)

A to G at 66876045 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Tyrosine to Cysteine at position 236 (Y236C)

Ref Sequence

ENSEMBL: ENSMUSP00000146557 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000058771] [ENSMUST00000156690] [ENSMUST00000179106] [ENSMUST00000207757] [ENSMUST00000207823] [ENSMUST00000208213] [ENSMUST00000208998] [ENSMUST00000208698] [ENSMUST00000208512]

AlphaFold

Q8CC84

Predicted Effect

probably damaging
Transcript: ENSMUST00000058771
AA Change: Y236C

PolyPhen 2 Score 1.000 (Sensitivity: 0.00; Specificity: 1.00)

SMART Domains

Protein: ENSMUSP00000053341
Gene: ENSMUSG00000043831
AA Change: Y236C

Domain	Start	End	E-Value	Type
low complexity region	31	43	N/A	INTRINSIC
LysM	72	116	3.73e-4	SMART
transmembrane domain	215	237	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000156690

SMART Domains

Protein: ENSMUSP00000117496
Gene: ENSMUSG00000030557

Domain	Start	End	E-Value	Type
MADS	1	60	6.15e-37	SMART
Pfam:HJURP_C	90	152	1.3e-8	PFAM
low complexity region	159	179	N/A	INTRINSIC
low complexity region	253	263	N/A	INTRINSIC
low complexity region	288	294	N/A	INTRINSIC
low complexity region	307	322	N/A	INTRINSIC
low complexity region	418	437	N/A	INTRINSIC
low complexity region	444	463	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000179106

SMART Domains

Protein: ENSMUSP00000136151
Gene: ENSMUSG00000043831

Domain	Start	End	E-Value	Type
low complexity region	31	43	N/A	INTRINSIC
LysM	72	116	3.73e-4	SMART
transmembrane domain	215	237	N/A	INTRINSIC

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000181631

Predicted Effect

probably benign
Transcript: ENSMUST00000207757

Predicted Effect

probably benign
Transcript: ENSMUST00000207823

Predicted Effect

probably benign
Transcript: ENSMUST00000208213

Predicted Effect

probably damaging
Transcript: ENSMUST00000208998
AA Change: Y236C

PolyPhen 2 Score 1.000 (Sensitivity: 0.00; Specificity: 1.00)

Predicted Effect

probably benign
Transcript: ENSMUST00000208698

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000208569

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000208802

Predicted Effect

probably benign
Transcript: ENSMUST00000208512

Coding Region Coverage

1x: 99.1%
3x: 98.2%
10x: 96.1%
20x: 92.8%

Validation Efficiency

Allele List at MGI

Other mutations in this stock

Total: 58 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
Abca13	T	C	11: 9,243,459 (GRCm39)	V1774A	probably damaging	Het
Adam34	G	A	8: 44,105,288 (GRCm39)	P119L	probably benign	Het
Ap3b2	T	C	7: 81,113,429 (GRCm39)		probably null	Het
Arfip2	G	A	7: 105,286,430 (GRCm39)	T124M	probably damaging	Het
Arhgef26	T	C	3: 62,330,965 (GRCm39)	S560P	probably damaging	Het
Bcl11a	A	T	11: 24,122,697 (GRCm39)		probably null	Het
Cab39	A	G	1: 85,776,881 (GRCm39)	E322G	probably damaging	Het
Cad	C	A	5: 31,229,665 (GRCm39)	P1382Q	probably benign	Het
Cc2d2a	T	C	5: 43,864,243 (GRCm39)		probably null	Het
Cela2a	A	T	4: 141,549,011 (GRCm39)		probably null	Het
Cert1	C	T	13: 96,770,629 (GRCm39)	R487*	probably null	Het
Ces1e	A	C	8: 93,950,667 (GRCm39)	I38S	probably benign	Het
Ces1f	A	T	8: 93,990,019 (GRCm39)	F364I	probably benign	Het
Chgb	A	G	2: 132,635,731 (GRCm39)	T558A	probably benign	Het
Cnpy4	C	T	5: 138,191,074 (GRCm39)	Q217*	probably null	Het
Crlf1	A	G	8: 70,951,249 (GRCm39)	T43A	probably benign	Het
Dnah7b	T	A	1: 46,173,816 (GRCm39)	M707K	probably damaging	Het
Ets2	G	A	16: 95,513,193 (GRCm39)	S123N	probably damaging	Het
Fry	T	C	5: 150,394,933 (GRCm39)	F304S	probably damaging	Het
Gadd45gip1	G	A	8: 85,560,745 (GRCm39)	R120H	probably benign	Het
Gbf1	A	G	19: 46,242,459 (GRCm39)	T96A	probably benign	Het
Ggn	T	A	7: 28,870,515 (GRCm39)	M1K	probably null	Het
Gm5239	A	G	18: 35,669,969 (GRCm39)	T112A	probably benign	Het
Insyn2b	C	A	11: 34,352,826 (GRCm39)	D289E	possibly damaging	Het
Kifbp	A	T	10: 62,413,861 (GRCm39)		probably null	Het
Lrrc15	A	T	16: 30,092,561 (GRCm39)	H259Q	probably benign	Het
Med29	T	C	7: 28,086,284 (GRCm39)	T175A	possibly damaging	Het
Mfsd12	G	T	10: 81,193,633 (GRCm39)	D68Y	probably damaging	Het
Myh1	T	C	11: 67,108,338 (GRCm39)	L1308P	probably damaging	Het
Nphp4	T	A	4: 152,636,388 (GRCm39)		probably null	Het
Or8g30	A	G	9: 39,230,757 (GRCm39)	I51T	probably benign	Het
Pdhx	A	G	2: 102,858,625 (GRCm39)	V393A	probably benign	Het
Pgm5	A	G	19: 24,801,763 (GRCm39)	I155T	possibly damaging	Het
Pgr	A	T	9: 8,965,023 (GRCm39)	I889F	probably benign	Het
Phactr4	T	A	4: 132,114,241 (GRCm39)	K51I	probably damaging	Het
Pum2	T	A	12: 8,778,754 (GRCm39)	I468K	possibly damaging	Het
Rab11a	A	G	9: 64,632,835 (GRCm39)	S24P	probably damaging	Het
Rasef	T	C	4: 73,666,799 (GRCm39)	Q160R	probably damaging	Het
Rbl2	A	G	8: 91,813,772 (GRCm39)	D339G	probably benign	Het
Recql5	A	G	11: 115,785,499 (GRCm39)	S666P	probably benign	Het
Rfc1	A	T	5: 65,453,395 (GRCm39)		probably null	Het
Scarb1	A	G	5: 125,366,756 (GRCm39)	V59A	probably damaging	Het
Slc2a4	C	T	11: 69,837,182 (GRCm39)	V85M	probably damaging	Het
Slc6a12	A	G	6: 121,335,584 (GRCm39)	I291V	possibly damaging	Het
Slco3a1	A	C	7: 74,154,174 (GRCm39)	Y104D	probably damaging	Het
Suz12	T	A	11: 79,889,904 (GRCm39)	D13E	probably damaging	Het
Tlr1	G	T	5: 65,083,310 (GRCm39)	C422*	probably null	Het
Tmco1	T	C	1: 167,153,462 (GRCm39)	V114A	probably damaging	Het
Trpa1	T	C	1: 14,951,856 (GRCm39)	T948A	probably benign	Het
Tub	A	T	7: 108,620,134 (GRCm39)	N93Y	probably damaging	Het
Ufsp2	G	A	8: 46,445,270 (GRCm39)		probably null	Het
Veph1	T	C	3: 66,079,396 (GRCm39)	D373G	probably benign	Het
Vmn1r206	A	G	13: 22,805,130 (GRCm39)	S26P	possibly damaging	Het
Vmn2r1	T	C	3: 63,989,240 (GRCm39)	S60P	possibly damaging	Het
Wdcp	A	G	12: 4,901,583 (GRCm39)	S480G	probably benign	Het
Wnk4	T	C	11: 101,159,630 (GRCm39)	S612P	probably benign	Het
Zfp503	T	C	14: 22,036,527 (GRCm39)	K130E	probably benign	Het
Zkscan16	G	A	4: 58,957,602 (GRCm39)	C628Y	possibly damaging	Het

Other mutations in Lysmd4

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL02244:Lysmd4	APN	7	66,875,672 (GRCm39)	missense	probably damaging	1.00
R0024:Lysmd4	UTSW	7	66,875,828 (GRCm39)	missense	probably benign	0.03
R0563:Lysmd4	UTSW	7	66,875,925 (GRCm39)	missense	probably benign	0.01
R0653:Lysmd4	UTSW	7	66,875,788 (GRCm39)	missense	probably benign	0.09
R1856:Lysmd4	UTSW	7	66,875,979 (GRCm39)	missense	probably benign	0.07
R7012:Lysmd4	UTSW	7	66,875,765 (GRCm39)	missense	probably benign	0.08
R7578:Lysmd4	UTSW	7	66,876,037 (GRCm39)	nonsense	probably null
R7777:Lysmd4	UTSW	7	66,873,446 (GRCm39)	missense	possibly damaging	0.92
R8064:Lysmd4	UTSW	7	66,873,398 (GRCm39)	missense	probably damaging	1.00
R8751:Lysmd4	UTSW	7	66,875,787 (GRCm39)	missense	probably benign	0.09
R8863:Lysmd4	UTSW	7	66,873,493 (GRCm39)	missense	probably damaging	0.97

Predicted Primers

PCR Primer
(F):5'- GACCTGCCTGAAGATGAAGATGCTG -3'
(R):5'- TCTGCCAACTCTAGGAAACAATGCG -3'

Sequencing Primer
(F):5'- TGACAGACTTCTTCAAGGGC -3'
(R):5'- TAGGCACTGGGATTGCCAAC -3'

Posted On

2013-04-16