Mutagenetix > Incidental Mutation

Incidental Mutation 'R9673:Lats1'

728163

Institutional Source

Beutler Lab

Gene Symbol

Lats1

Ensembl Gene

ENSMUSG00000040021

Gene Name

large tumor suppressor

Synonyms

MMRRC Submission

Accession Numbers

Essential gene?

Probably essential (E-score: 0.822) question?

Stock #

R9673 (G1)

Quality Score

225.009

Status

Not validated

Chromosome

Chromosomal Location

7556978-7592224 bp(+) (GRCm39)

Type of Mutation

missense

DNA Base Change (assembly)

T to G at 7588387 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Aspartic acid to Glutamic Acid at position 1001 (D1001E)

Ref Sequence

ENSEMBL: ENSMUSP00000132078 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000040043] [ENSMUST00000165952] [ENSMUST00000217931]

AlphaFold

Q8BYR2

Predicted Effect

probably benign
Transcript: ENSMUST00000040043
AA Change: D1001E

PolyPhen 2 Score 0.290 (Sensitivity: 0.91; Specificity: 0.88)

SMART Domains

Protein: ENSMUSP00000041915
Gene: ENSMUSG00000040021
AA Change: D1001E

Domain	Start	End	E-Value	Type
Pfam:UBA	101	138	7.4e-11	PFAM
low complexity region	228	267	N/A	INTRINSIC
low complexity region	301	314	N/A	INTRINSIC
low complexity region	371	379	N/A	INTRINSIC
low complexity region	433	445	N/A	INTRINSIC
low complexity region	482	493	N/A	INTRINSIC
low complexity region	520	530	N/A	INTRINSIC
low complexity region	554	559	N/A	INTRINSIC
S_TKc	704	1009	7.3e-99	SMART
S_TK_X	1010	1081	1.2e-2	SMART
low complexity region	1102	1120	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000165952
AA Change: D1001E

PolyPhen 2 Score 0.290 (Sensitivity: 0.91; Specificity: 0.88)

SMART Domains

Protein: ENSMUSP00000132078
Gene: ENSMUSG00000040021
AA Change: D1001E

Domain	Start	End	E-Value	Type
Pfam:UBA	101	138	7.4e-11	PFAM
low complexity region	228	267	N/A	INTRINSIC
low complexity region	301	314	N/A	INTRINSIC
low complexity region	371	379	N/A	INTRINSIC
low complexity region	433	445	N/A	INTRINSIC
low complexity region	482	493	N/A	INTRINSIC
low complexity region	520	530	N/A	INTRINSIC
low complexity region	554	559	N/A	INTRINSIC
S_TKc	704	1009	7.3e-99	SMART
S_TK_X	1010	1081	1.2e-2	SMART
low complexity region	1102	1120	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000217931
AA Change: D1001E

PolyPhen 2 Score 0.290 (Sensitivity: 0.91; Specificity: 0.88)

Coding Region Coverage

1x: 100.0%
3x: 100.0%
10x: 99.7%
20x: 99.2%

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 putative serine/threonine kinase that localizes to the mitotic apparatus and complexes with cell cycle controller CDC2 kinase in early mitosis. The protein is phosphorylated in a cell-cycle dependent manner, with late prophase phosphorylation remaining through metaphase. The N-terminal region of the protein binds CDC2 to form a complex showing reduced H1 histone kinase activity, indicating a role as a negative regulator of CDC2/cyclin A. In addition, the C-terminal kinase domain binds to its own N-terminal region, suggesting potential negative regulation through interference with complex formation via intramolecular binding. Biochemical and genetic data suggest a role as a tumor suppressor. This is supported by studies in knockout mice showing development of soft-tissue sarcomas, ovarian stromal cell tumors and a high sensitivity to carcinogenic treatments. Two protein-coding transcripts and one non-protein coding transcript have been found for this gene. [provided by RefSeq, Jul 2012]
PHENOTYPE: Homozygotes for a targeted null mutation exhibit high postnatal mortality, lack of mammary development, infertility, pituitary hyperplasia, reduced hormone levels, growth retardation, and susceptibility to sarcomas and ovarian stromal cell tumors. [provided by MGI curators]

Allele List at MGI

Other mutations in this stock

Total: 79 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
4930568D16Rik	T	C	2: 35,244,399 (GRCm39)	K318E	probably benign	Het
Ap5z1	T	C	5: 142,463,113 (GRCm39)	F766L	probably benign	Het
Atrnl1	A	G	19: 57,599,786 (GRCm39)	M1V	probably null	Het
Atxn1	T	C	13: 45,710,622 (GRCm39)	E770G	probably benign	Het
Brwd1	T	G	16: 95,813,096 (GRCm39)	I1471L	probably benign	Het
Bud23	T	C	5: 135,082,571 (GRCm39)	E66G	probably benign	Het
Cdh8	T	A	8: 99,757,367 (GRCm39)	I744L	possibly damaging	Het
Celsr1	G	T	15: 85,917,286 (GRCm39)	S229*	probably null	Het
Cep95	C	A	11: 106,703,322 (GRCm39)	H467Q	probably benign	Het
Chd1	A	G	17: 15,989,023 (GRCm39)	Y1592C	probably benign	Het
Chkb	C	G	15: 89,313,628 (GRCm39)	G59A	probably damaging	Het
Copa	A	G	1: 171,945,648 (GRCm39)	S915G	probably benign	Het
Creb3	G	T	4: 43,563,191 (GRCm39)	V97F	probably damaging	Het
Csmd2	T	A	4: 128,308,062 (GRCm39)	H1273Q		Het
Cxcr1	T	C	1: 74,231,074 (GRCm39)	N316S	probably benign	Het
Cyct	A	T	2: 76,184,523 (GRCm39)	I76N	probably damaging	Het
Dmxl2	G	T	9: 54,294,840 (GRCm39)	R2412S	probably damaging	Het
Dnah11	A	G	12: 117,982,513 (GRCm39)	M2552T	possibly damaging	Het
Dnph1	G	A	17: 46,809,901 (GRCm39)	E148K	possibly damaging	Het
Ecpas	T	C	4: 58,822,060 (GRCm39)	N1169S	probably benign	Het
Esp16	T	A	17: 39,848,731 (GRCm39)	Y8*	probably null	Het
Fam186a	T	C	15: 99,841,024 (GRCm39)	D1740G	possibly damaging	Het
Fam76a	C	A	4: 132,628,557 (GRCm39)	K300N	probably damaging	Het
Fcgbpl1	A	G	7: 27,856,044 (GRCm39)	T1944A	probably benign	Het
Frrs1l	A	C	4: 56,990,191 (GRCm39)	D27E		Het
G6pc1	T	C	11: 101,267,380 (GRCm39)	S277P	probably damaging	Het
Gabrg3	T	A	7: 56,973,422 (GRCm39)	I82F	probably damaging	Het
Gm3604	G	T	13: 62,517,969 (GRCm39)	Q130K	probably benign	Het
Hhip	T	A	8: 80,719,108 (GRCm39)	D473V	probably damaging	Het
Ifi209	T	C	1: 173,470,332 (GRCm39)	S307P	probably damaging	Het
Ino80c	C	T	18: 24,254,856 (GRCm39)	M1I	probably null	Het
Jag2	G	T	12: 112,875,416 (GRCm39)	C872*	probably null	Het
Kcnma1	A	C	14: 23,558,123 (GRCm39)	H474Q	probably benign	Het
Krr1	G	A	10: 111,818,963 (GRCm39)		probably null	Het
Lilrb4b	T	C	10: 51,357,753 (GRCm39)	L149P	probably benign	Het
Lrrk2	T	A	15: 91,649,884 (GRCm39)	S1674T	probably damaging	Het
Magi2	A	G	5: 20,670,582 (GRCm39)	I309V	possibly damaging	Het
Mtmr4	A	G	11: 87,503,138 (GRCm39)	D1064G	probably damaging	Het
Mtmr4	T	C	11: 87,504,916 (GRCm39)	V1137A	probably damaging	Het
Neb	C	T	2: 52,133,853 (GRCm39)		probably null	Het
Nhsl1	T	A	10: 18,402,665 (GRCm39)	V1297E	possibly damaging	Het
Nlrp3	T	A	11: 59,440,148 (GRCm39)	V575D	probably damaging	Het
Nptx2	T	C	5: 144,492,159 (GRCm39)	I312T	possibly damaging	Het
Osm	A	G	11: 4,189,926 (GRCm39)	T237A	probably benign	Het
Pcdha12	T	C	18: 37,155,234 (GRCm39)	V651A	possibly damaging	Het
Pclo	A	G	5: 14,908,758 (GRCm39)		probably null	Het
Pdlim3	C	T	8: 46,368,195 (GRCm39)	S183L	possibly damaging	Het
Peg10	GC	GCTCC	6: 4,756,452 (GRCm39)		probably benign	Het
Pgm2	T	A	5: 64,273,671 (GRCm39)	M552K	probably damaging	Het
Pkhd1l1	T	C	15: 44,386,901 (GRCm39)	L1258S	probably benign	Het
Proser3	T	G	7: 30,248,530 (GRCm39)	T55P	probably damaging	Het
Ranbp2	C	A	10: 58,300,963 (GRCm39)	P611Q	probably damaging	Het
Rangap1	T	C	15: 81,590,637 (GRCm39)	D485G	probably benign	Het
Rp1	G	A	1: 4,337,792 (GRCm39)	T421I	unknown	Het
Ryr3	G	A	2: 112,486,883 (GRCm39)	L3862F	possibly damaging	Het
Sbf1	C	T	15: 89,179,675 (GRCm39)	G1337R	possibly damaging	Het
Setd2	A	G	9: 110,378,138 (GRCm39)	E651G	probably damaging	Het
Shmt1	A	G	11: 60,692,769 (GRCm39)	W105R	probably damaging	Het
Skor2	C	T	18: 76,946,376 (GRCm39)	H33Y	unknown	Het
Slc22a29	T	C	19: 8,140,104 (GRCm39)	I434V	probably benign	Het
Sord	C	T	2: 122,090,712 (GRCm39)	T221I	probably benign	Het
Speer1g	T	A	5: 11,178,990 (GRCm39)	N55K	probably benign	Het
Tbcd	T	C	11: 121,464,647 (GRCm39)	Y561H	probably damaging	Het
Tcaf1	G	A	6: 42,663,808 (GRCm39)	S24F	probably benign	Het
Tenm4	A	T	7: 96,517,196 (GRCm39)	D1429V	probably damaging	Het
Tesk1	A	G	4: 43,444,574 (GRCm39)	Y126C	probably damaging	Het
Tmem176a	G	A	6: 48,820,952 (GRCm39)	V141I	probably benign	Het
Tmem204	A	T	17: 25,299,243 (GRCm39)	V92D	probably damaging	Het
Ttn	T	A	2: 76,572,605 (GRCm39)	D26096V	probably damaging	Het
Vmn1r70	T	A	7: 10,368,364 (GRCm39)	L284Q	probably damaging	Het
Vmn2r77	T	C	7: 86,450,171 (GRCm39)	V139A	possibly damaging	Het
Wdpcp	A	G	11: 21,671,285 (GRCm39)	R509G	possibly damaging	Het
Wee1	C	T	7: 109,725,210 (GRCm39)	T284I	probably damaging	Het
Wfs1	A	G	5: 37,125,113 (GRCm39)	S593P	probably damaging	Het
Zbtb11	A	G	16: 55,827,336 (GRCm39)	H934R	probably damaging	Het
Zfp277	A	T	12: 40,370,611 (GRCm39)	V446E	probably benign	Het
Zfp874a	C	A	13: 67,591,156 (GRCm39)	R176L	probably benign	Het
Znrf2	A	T	6: 54,840,978 (GRCm39)	N184I	probably damaging	Het
Zp2	T	A	7: 119,733,238 (GRCm39)	T568S	probably damaging	Het

Other mutations in Lats1

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL00234:Lats1	APN	10	7,567,330 (GRCm39)	missense	probably damaging	0.99
IGL00595:Lats1	APN	10	7,578,069 (GRCm39)	missense	probably benign	0.00
IGL00932:Lats1	APN	10	7,588,506 (GRCm39)	missense	possibly damaging	0.69
IGL01019:Lats1	APN	10	7,581,435 (GRCm39)	missense	probably damaging	1.00
IGL01380:Lats1	APN	10	7,567,544 (GRCm39)	missense	possibly damaging	0.69
IGL01965:Lats1	APN	10	7,577,470 (GRCm39)	missense	probably benign	0.10
IGL02027:Lats1	APN	10	7,588,712 (GRCm39)	missense	probably benign
IGL02611:Lats1	APN	10	7,581,551 (GRCm39)	missense	possibly damaging	0.91
IGL02997:Lats1	APN	10	7,578,018 (GRCm39)	missense	possibly damaging	0.53
IGL03107:Lats1	APN	10	7,588,510 (GRCm39)	missense	probably benign	0.15
I1329:Lats1	UTSW	10	7,588,566 (GRCm39)	missense	probably benign	0.10
PIT4378001:Lats1	UTSW	10	7,581,369 (GRCm39)	missense	probably damaging	1.00
R0153:Lats1	UTSW	10	7,567,339 (GRCm39)	missense	probably damaging	1.00
R0568:Lats1	UTSW	10	7,588,292 (GRCm39)	missense	possibly damaging	0.69
R0581:Lats1	UTSW	10	7,578,705 (GRCm39)	missense	possibly damaging	0.67
R0604:Lats1	UTSW	10	7,588,425 (GRCm39)	missense	probably damaging	0.96
R1681:Lats1	UTSW	10	7,581,678 (GRCm39)	missense	probably damaging	0.99
R1694:Lats1	UTSW	10	7,577,709 (GRCm39)	missense	probably benign	0.07
R1840:Lats1	UTSW	10	7,586,703 (GRCm39)	nonsense	probably null
R1914:Lats1	UTSW	10	7,586,221 (GRCm39)	splice site	probably benign
R2137:Lats1	UTSW	10	7,577,611 (GRCm39)	missense	possibly damaging	0.71
R2317:Lats1	UTSW	10	7,567,540 (GRCm39)	nonsense	probably null
R3863:Lats1	UTSW	10	7,581,510 (GRCm39)	missense	probably damaging	1.00
R3864:Lats1	UTSW	10	7,581,510 (GRCm39)	missense	probably damaging	1.00
R4597:Lats1	UTSW	10	7,567,510 (GRCm39)	missense	probably benign	0.00
R4657:Lats1	UTSW	10	7,581,448 (GRCm39)	missense	possibly damaging	0.82
R4658:Lats1	UTSW	10	7,578,493 (GRCm39)	missense	probably benign
R4663:Lats1	UTSW	10	7,588,347 (GRCm39)	missense	probably damaging	1.00
R4870:Lats1	UTSW	10	7,581,549 (GRCm39)	missense	probably damaging	1.00
R5101:Lats1	UTSW	10	7,588,348 (GRCm39)	nonsense	probably null
R5134:Lats1	UTSW	10	7,567,575 (GRCm39)	missense	probably benign	0.34
R5150:Lats1	UTSW	10	7,588,415 (GRCm39)	missense	probably benign
R5546:Lats1	UTSW	10	7,581,518 (GRCm39)	missense	probably damaging	0.99
R5820:Lats1	UTSW	10	7,581,672 (GRCm39)	missense	probably damaging	1.00
R6006:Lats1	UTSW	10	7,581,359 (GRCm39)	missense	probably damaging	1.00
R6301:Lats1	UTSW	10	7,578,871 (GRCm39)	missense	probably benign	0.01
R6544:Lats1	UTSW	10	7,577,434 (GRCm39)	missense	possibly damaging	0.94
R6647:Lats1	UTSW	10	7,573,271 (GRCm39)	missense	possibly damaging	0.81
R6874:Lats1	UTSW	10	7,586,615 (GRCm39)	missense	probably damaging	1.00
R7328:Lats1	UTSW	10	7,581,311 (GRCm39)	missense	possibly damaging	0.62
R7390:Lats1	UTSW	10	7,577,859 (GRCm39)	nonsense	probably null
R7438:Lats1	UTSW	10	7,588,706 (GRCm39)	nonsense	probably null
R7457:Lats1	UTSW	10	7,586,655 (GRCm39)	missense	probably damaging	1.00
R7524:Lats1	UTSW	10	7,577,742 (GRCm39)	missense	possibly damaging	0.89
R7593:Lats1	UTSW	10	7,577,476 (GRCm39)	missense	probably damaging	1.00
R7736:Lats1	UTSW	10	7,578,128 (GRCm39)	missense	probably damaging	1.00
R7884:Lats1	UTSW	10	7,573,290 (GRCm39)	nonsense	probably null
R8166:Lats1	UTSW	10	7,577,880 (GRCm39)	missense	probably benign
R8248:Lats1	UTSW	10	7,581,667 (GRCm39)	missense	probably damaging	1.00
R8458:Lats1	UTSW	10	7,586,688 (GRCm39)	nonsense	probably null
R8477:Lats1	UTSW	10	7,581,279 (GRCm39)	missense	probably damaging	1.00
R8547:Lats1	UTSW	10	7,588,613 (GRCm39)	missense	probably damaging	1.00
R9163:Lats1	UTSW	10	7,578,052 (GRCm39)	missense	probably benign
R9441:Lats1	UTSW	10	7,578,681 (GRCm39)	missense	probably damaging	0.96
RF021:Lats1	UTSW	10	7,586,372 (GRCm39)	missense	probably damaging	1.00
X0026:Lats1	UTSW	10	7,586,387 (GRCm39)	missense	probably damaging	1.00
X0053:Lats1	UTSW	10	7,567,373 (GRCm39)	missense	probably benign	0.00
Z1176:Lats1	UTSW	10	7,581,573 (GRCm39)	missense	probably damaging	1.00

Predicted Primers

PCR Primer
(F):5'- CATTTAGAAAACCAAGTAGTCCAGG -3'
(R):5'- ACCATCCGTTCAGAGTGTCAC -3'

Sequencing Primer
(F):5'- TAGTCCAGGAAGACATTTGGTAC -3'
(R):5'- CGTTCAGAGTGTCACTGATATTTTC -3'

Posted On

2022-10-06