Mutagenetix > Incidental Mutation

Incidental Mutation 'R9599:Lin54'

723446

Institutional Source

Beutler Lab

Gene Symbol

Lin54

Ensembl Gene

ENSMUSG00000035310

Gene Name

lin-54 DREAM MuvB core complex component

Synonyms

MMRRC Submission

Accession Numbers

Essential gene?

Probably essential (E-score: 0.957) question?

Stock #

R9599 (G1)

Quality Score

225.009

Status

Not validated

Chromosome

Chromosomal Location

100589900-100648493 bp(-) (GRCm39)

Type of Mutation

missense

DNA Base Change (assembly)

C to A at 100598546 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Arginine to Leucine at position 593 (R593L)

Ref Sequence

ENSEMBL: ENSMUSP00000041374 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000046154] [ENSMUST00000123572] [ENSMUST00000137750] [ENSMUST00000139234] [ENSMUST00000144030] [ENSMUST00000149714] [ENSMUST00000152387] [ENSMUST00000154921]

AlphaFold

no structure available at present

Predicted Effect

probably damaging
Transcript: ENSMUST00000046154
AA Change: R593L

PolyPhen 2 Score 0.999 (Sensitivity: 0.14; Specificity: 0.99)

SMART Domains

Protein: ENSMUSP00000041374
Gene: ENSMUSG00000035310
AA Change: R593L

Domain	Start	End	E-Value	Type
low complexity region	364	382	N/A	INTRINSIC
low complexity region	404	419	N/A	INTRINSIC
CXC	520	560	3.06e-15	SMART
CXC	594	635	1.84e-18	SMART

Predicted Effect

probably damaging
Transcript: ENSMUST00000123572
AA Change: R593L

PolyPhen 2 Score 0.999 (Sensitivity: 0.14; Specificity: 0.99)

SMART Domains

Protein: ENSMUSP00000123425
Gene: ENSMUSG00000035310
AA Change: R593L

Domain	Start	End	E-Value	Type
low complexity region	364	382	N/A	INTRINSIC
low complexity region	404	419	N/A	INTRINSIC
CXC	520	560	3.06e-15	SMART
CXC	594	635	1.84e-18	SMART

Predicted Effect

probably damaging
Transcript: ENSMUST00000137750
AA Change: R372L

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

SMART Domains

Protein: ENSMUSP00000120644
Gene: ENSMUSG00000035310
AA Change: R372L

Domain	Start	End	E-Value	Type
low complexity region	143	161	N/A	INTRINSIC
low complexity region	183	198	N/A	INTRINSIC
CXC	299	339	3.06e-15	SMART
CXC	373	414	1.84e-18	SMART

Predicted Effect

probably benign
Transcript: ENSMUST00000139234

SMART Domains

Protein: ENSMUSP00000119322
Gene: ENSMUSG00000035310

Domain	Start	End	E-Value	Type
low complexity region	218	229	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000144030

Predicted Effect

probably damaging
Transcript: ENSMUST00000149714
AA Change: R372L

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

SMART Domains

Protein: ENSMUSP00000123544
Gene: ENSMUSG00000035310
AA Change: R372L

Domain	Start	End	E-Value	Type
low complexity region	143	161	N/A	INTRINSIC
low complexity region	183	198	N/A	INTRINSIC
CXC	299	339	3.06e-15	SMART
CXC	373	414	1.84e-18	SMART

Predicted Effect

probably damaging
Transcript: ENSMUST00000152387
AA Change: R504L

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

SMART Domains

Protein: ENSMUSP00000121902
Gene: ENSMUSG00000035310
AA Change: R504L

Domain	Start	End	E-Value	Type
low complexity region	218	231	N/A	INTRINSIC
low complexity region	275	293	N/A	INTRINSIC
low complexity region	315	330	N/A	INTRINSIC
CXC	431	471	3.06e-15	SMART
CXC	505	546	1.84e-18	SMART

Predicted Effect

probably damaging
Transcript: ENSMUST00000154921
AA Change: R372L

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

SMART Domains

Protein: ENSMUSP00000121137
Gene: ENSMUSG00000035310
AA Change: R372L

Domain	Start	End	E-Value	Type
low complexity region	143	161	N/A	INTRINSIC
low complexity region	183	198	N/A	INTRINSIC
CXC	299	339	3.06e-15	SMART
CXC	373	414	1.84e-18	SMART

Coding Region Coverage

1x: 100.0%
3x: 99.9%
10x: 99.5%
20x: 98.4%

Validation Efficiency

MGI Phenotype

FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] LIN54 is a component of the LIN, or DREAM, complex, an essential regulator of cell cycle genes (Schmit et al., 2009 [PubMed 19725879]).[supplied by OMIM, Dec 2010]

Allele List at MGI

Other mutations in this stock

Total: 77 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
1110002E22Rik	A	G	3: 137,774,267 (GRCm39)	N1152S	probably benign	Het
Abcb6	A	T	1: 75,151,372 (GRCm39)	Y518N	possibly damaging	Het
Actr2	G	A	11: 20,030,745 (GRCm39)	P168S	probably damaging	Het
Adam12	A	G	7: 133,566,454 (GRCm39)	V332A	probably damaging	Het
Adam23	T	C	1: 63,620,359 (GRCm39)	I805T	probably benign	Het
Adar	A	G	3: 89,654,516 (GRCm39)	T883A	probably benign	Het
Aldh3a1	A	G	11: 61,107,912 (GRCm39)	T319A	probably damaging	Het
Apcdd1	T	A	18: 63,083,269 (GRCm39)		probably null	Het
Arhgef18	C	A	8: 3,482,718 (GRCm39)	A141E	possibly damaging	Het
Bub3	A	G	7: 131,170,428 (GRCm39)	T317A	probably benign	Het
Ccdc102a	A	G	8: 95,639,901 (GRCm39)	L131P	probably damaging	Het
Ccdc60	C	A	5: 116,269,265 (GRCm39)	D452Y	probably damaging	Het
Ccdc66	T	C	14: 27,219,381 (GRCm39)	E125G	probably damaging	Het
Ccdc68	A	G	18: 70,093,492 (GRCm39)	E233G	probably damaging	Het
Cep192	A	G	18: 67,968,525 (GRCm39)	D973G	probably benign	Het
Cox5b	T	A	1: 36,730,759 (GRCm39)	M31K	probably benign	Het
Cse1l	A	G	2: 166,783,386 (GRCm39)	N780S	probably benign	Het
Cyfip1	T	C	7: 55,563,277 (GRCm39)		probably null	Het
Cyp1a1	C	T	9: 57,607,770 (GRCm39)	P133S	probably benign	Het
Dcp1a	A	G	14: 30,241,497 (GRCm39)	M436V	probably benign	Het
Dcst1	G	T	3: 89,265,075 (GRCm39)	Y258*	probably null	Het
Dhx30	T	C	9: 109,914,518 (GRCm39)	E993G	possibly damaging	Het
Disc1	A	T	8: 125,814,261 (GRCm39)	M42L	possibly damaging	Het
Dnah8	CGTGTCTTCAATATTTTGTTCCCTTTCCCGTAGGTGCCGTCCTTTGACTTTCCTGTGTCTTCAATATTTTGTTCCCTTTCCCGTAGGTGCCGTCCTTTGACTTTCCTGTGTCTTCAATATTTTGTTCCCTTTCCCGTAGGTGCCGTCCTT	CGTGTCTTCAATATTTTGTTCCCTTTCCCGTAGGTGCCGTCCTTTGACTTTCCTGTGTCTTCAATATTTTGTTCCCTTTCCCGTAGGTGCCGTCCTT	17: 30,979,841 (GRCm39)		probably null	Het
Entrep3	A	G	3: 89,094,099 (GRCm39)	D304G	possibly damaging	Het
Erbb2	A	T	11: 98,318,216 (GRCm39)	D484V	probably benign	Het
Fxr2	A	G	11: 69,543,469 (GRCm39)	N657D	probably benign	Het
Gbx2	T	C	1: 89,856,635 (GRCm39)	T252A	probably damaging	Het
Gdap2	A	T	3: 100,078,264 (GRCm39)	N76I	probably damaging	Het
Gm20939	A	G	17: 95,184,666 (GRCm39)	Y438C	probably damaging	Het
Gsdma2	A	G	11: 98,540,459 (GRCm39)	E126G	possibly damaging	Het
Gsg1	T	G	6: 135,217,098 (GRCm39)	H246P	probably damaging	Het
Hjurp	TCTGGGAGGGCTTGCTCCGGGGGCAGTGTGTCCTGTTCTTGTGCAGCCCCTGCT	TCT	1: 88,194,000 (GRCm39)		probably benign	Het
Ighv1-62-1	T	C	12: 115,350,601 (GRCm39)	Q22R	possibly damaging	Het
Kcng3	A	T	17: 83,895,211 (GRCm39)	F418L	probably benign	Het
Lrp1	T	A	10: 127,410,246 (GRCm39)	N1500I	probably damaging	Het
Lvrn	A	C	18: 46,999,494 (GRCm39)	S287R	probably benign	Het
Mab21l4	T	C	1: 93,087,568 (GRCm39)	E95G	possibly damaging	Het
Madd	G	A	2: 91,006,026 (GRCm39)	P390S	probably damaging	Het
Mapk8ip3	C	A	17: 25,118,124 (GRCm39)	R1281L	probably damaging	Het
Masp1	T	A	16: 23,271,698 (GRCm39)	T618S	probably benign	Het
Mgat5	A	G	1: 127,248,445 (GRCm39)	T116A	probably benign	Het
Mmp1a	TG	TGG	9: 7,465,083 (GRCm38)		probably null	Het
Mrpl39	A	G	16: 84,527,359 (GRCm39)	F176S	probably damaging	Het
Myt1l	T	C	12: 29,943,441 (GRCm39)	I953T	unknown	Het
Nedd4l	A	G	18: 65,343,400 (GRCm39)	H820R	probably damaging	Het
Nxpe3	A	T	16: 55,664,855 (GRCm39)	V455D	probably damaging	Het
Olfm4	T	C	14: 80,243,747 (GRCm39)	F105S	probably damaging	Het
Or10ak8	C	T	4: 118,773,851 (GRCm39)	R271Q	probably benign	Het
Patz1	A	G	11: 3,240,720 (GRCm39)	N36S	probably benign	Het
Peg3	T	A	7: 6,714,723 (GRCm39)	K166N	probably damaging	Het
Pes1	T	A	11: 3,926,118 (GRCm39)	D302E	probably benign	Het
Pierce1	TCTCTGGGGCAGGCTTAGCCTTGGGCTCCCCCGGCTCCGGCTCCTCTGGGGCAGGCTTAGCCTTGGGCTCCCCCGGCTCCGGCTCCTCTGGGGCGGGCTTAGCCTTGGGCTCCCCCGGCTCCGGCTCCTC	TCTCTGGGGCAGGCTTAGCCTTGGGCTCCCCCGGCTCCGGCTCCTCTGGGGCGGGCTTAGCCTTGGGCTCCCCCGGCTCCGGCTCCTC	2: 28,356,122 (GRCm39)		probably benign	Het
Plekhh3	G	A	11: 101,054,972 (GRCm39)	T627M	unknown	Het
Plxnd1	C	T	6: 115,940,274 (GRCm39)	R1370Q	possibly damaging	Het
Rnf20	T	C	4: 49,638,751 (GRCm39)	V191A	probably benign	Het
Scn8a	A	T	15: 100,911,172 (GRCm39)	K864M	probably damaging	Het
Sema3c	T	C	5: 17,919,452 (GRCm39)		probably null	Het
Slc24a4	C	T	12: 102,097,779 (GRCm39)	T30I	probably benign	Het
Slc27a2	A	G	2: 126,420,904 (GRCm39)	D465G	probably damaging	Het
Snrnp48	T	C	13: 38,393,920 (GRCm39)	M75T	probably benign	Het
Srgap2	A	G	1: 131,272,164 (GRCm39)	S41P		Het
St3gal5	A	G	6: 72,130,580 (GRCm39)	T391A	probably benign	Het
Stkld1	T	C	2: 26,843,297 (GRCm39)	L628P	possibly damaging	Het
Tbc1d1	T	A	5: 64,502,701 (GRCm39)	M1074K	probably benign	Het
Tent2	G	T	13: 93,322,821 (GRCm39)	Q43K	probably benign	Het
Tpsb2	T	A	17: 25,586,077 (GRCm39)	Y98*	probably null	Het
Trav6d-3	G	A	14: 52,964,144 (GRCm39)	D36N	probably benign	Het
Trim16	A	G	11: 62,731,644 (GRCm39)	Y505C	probably damaging	Het
Ttpal	A	G	2: 163,457,458 (GRCm39)	D310G	probably benign	Het
Ubox5	A	G	2: 130,441,835 (GRCm39)	I284T	probably damaging	Het
Vmn2r45	T	A	7: 8,478,457 (GRCm39)		probably null	Het
Vmn2r67	T	C	7: 84,804,941 (GRCm39)	D57G	probably damaging	Het
Wdfy4	T	C	14: 32,855,428 (GRCm39)	T729A		Het
Wdr81	A	T	11: 75,344,349 (GRCm39)	M306K	probably benign	Het
Zfp62	A	G	11: 49,106,542 (GRCm39)	D211G	probably damaging	Het
Zfyve16	T	C	13: 92,636,763 (GRCm39)	K1316E	probably damaging	Het

Other mutations in Lin54

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL01286:Lin54	APN	5	100,633,466 (GRCm39)	missense	probably benign	0.03
IGL01356:Lin54	APN	5	100,601,876 (GRCm39)	missense	probably damaging	0.98
IGL02931:Lin54	APN	5	100,628,180 (GRCm39)	missense	possibly damaging	0.93
IGL03089:Lin54	APN	5	100,598,852 (GRCm39)	missense	probably damaging	1.00
IGL03095:Lin54	APN	5	100,602,337 (GRCm39)	missense	probably damaging	0.99
IGL03202:Lin54	APN	5	100,623,673 (GRCm39)	missense	possibly damaging	0.92
R0505:Lin54	UTSW	5	100,600,152 (GRCm39)	missense	probably damaging	0.98
R1138:Lin54	UTSW	5	100,591,993 (GRCm39)	missense	probably damaging	0.98
R1540:Lin54	UTSW	5	100,628,109 (GRCm39)	missense	probably damaging	0.99
R1719:Lin54	UTSW	5	100,633,108 (GRCm39)	missense	possibly damaging	0.91
R1991:Lin54	UTSW	5	100,633,660 (GRCm39)	critical splice donor site	probably null
R2698:Lin54	UTSW	5	100,628,109 (GRCm39)	missense	probably damaging	0.99
R3738:Lin54	UTSW	5	100,607,665 (GRCm39)	splice site	probably benign
R4238:Lin54	UTSW	5	100,623,603 (GRCm39)	missense	possibly damaging	0.45
R4424:Lin54	UTSW	5	100,594,419 (GRCm39)	missense	probably damaging	0.98
R4529:Lin54	UTSW	5	100,594,419 (GRCm39)	missense	possibly damaging	0.91
R4530:Lin54	UTSW	5	100,594,419 (GRCm39)	missense	possibly damaging	0.91
R4531:Lin54	UTSW	5	100,594,419 (GRCm39)	missense	possibly damaging	0.91
R4532:Lin54	UTSW	5	100,594,419 (GRCm39)	missense	possibly damaging	0.91
R4533:Lin54	UTSW	5	100,633,262 (GRCm39)	missense	possibly damaging	0.79
R4665:Lin54	UTSW	5	100,600,943 (GRCm39)	missense	possibly damaging	0.92
R4784:Lin54	UTSW	5	100,607,597 (GRCm39)	missense	probably damaging	0.99
R4785:Lin54	UTSW	5	100,607,597 (GRCm39)	missense	probably damaging	0.99
R5252:Lin54	UTSW	5	100,628,063 (GRCm39)	missense	probably benign
R5265:Lin54	UTSW	5	100,633,378 (GRCm39)	missense	probably damaging	1.00
R6545:Lin54	UTSW	5	100,632,996 (GRCm39)	splice site	probably null
R7150:Lin54	UTSW	5	100,633,159 (GRCm39)	missense	possibly damaging	0.74
R7544:Lin54	UTSW	5	100,633,129 (GRCm39)	missense	possibly damaging	0.84
R8165:Lin54	UTSW	5	100,602,358 (GRCm39)	missense	probably benign	0.11
R8767:Lin54	UTSW	5	100,600,884 (GRCm39)	missense	probably benign	0.27
R8940:Lin54	UTSW	5	100,594,530 (GRCm39)	missense	probably damaging	1.00
X0025:Lin54	UTSW	5	100,602,302 (GRCm39)	missense	probably benign	0.11
X0026:Lin54	UTSW	5	100,598,858 (GRCm39)	missense	probably damaging	0.97
Z1189:Lin54	UTSW	5	100,607,640 (GRCm39)	missense	probably benign

Predicted Primers

PCR Primer
(F):5'- AGCTGATGAAACCAATCCCATCTG -3'
(R):5'- GCAAGTGACTGACAAACATTCC -3'

Sequencing Primer
(F):5'- CTGAATGATGAGTCCTGCTTAGAAG -3'
(R):5'- GTGACTGACAAACATTCCTCTTAC -3'

Posted On

2022-08-09