Mutagenetix > Incidental Mutation

Incidental Mutation 'R4784:Lin54'

366815

Institutional Source

Beutler Lab

Gene Symbol

Lin54

Ensembl Gene

ENSMUSG00000035310

Gene Name

lin-54 DREAM MuvB core complex component

Synonyms

MMRRC Submission

041994-MU

Accession Numbers

Essential gene?

Probably essential (E-score: 0.958) question?

Stock #

R4784 (G1)

Quality Score

225

Status

Not validated

Chromosome

Chromosomal Location

100589900-100648493 bp(-) (GRCm39)

Type of Mutation

missense

DNA Base Change (assembly)

A to G at 100607597 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Isoleucine to Threonine at position 250 (I250T)

Ref Sequence

ENSEMBL: ENSMUSP00000121902 (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: I339T

PolyPhen 2 Score 0.986 (Sensitivity: 0.74; Specificity: 0.96)

SMART Domains

Protein: ENSMUSP00000041374
Gene: ENSMUSG00000035310
AA Change: I339T

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: I339T

PolyPhen 2 Score 0.986 (Sensitivity: 0.74; Specificity: 0.96)

SMART Domains

Protein: ENSMUSP00000123425
Gene: ENSMUSG00000035310
AA Change: I339T

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 benign
Transcript: ENSMUST00000134439

Predicted Effect

probably damaging
Transcript: ENSMUST00000137750
AA Change: I118T

PolyPhen 2 Score 0.968 (Sensitivity: 0.77; Specificity: 0.95)

SMART Domains

Protein: ENSMUSP00000120644
Gene: ENSMUSG00000035310
AA Change: I118T

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: I118T

PolyPhen 2 Score 0.968 (Sensitivity: 0.77; Specificity: 0.95)

SMART Domains

Protein: ENSMUSP00000123544
Gene: ENSMUSG00000035310
AA Change: I118T

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: I250T

PolyPhen 2 Score 0.987 (Sensitivity: 0.73; Specificity: 0.96)

SMART Domains

Protein: ENSMUSP00000121902
Gene: ENSMUSG00000035310
AA Change: I250T

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: I118T

PolyPhen 2 Score 0.968 (Sensitivity: 0.77; Specificity: 0.95)

SMART Domains

Protein: ENSMUSP00000121137
Gene: ENSMUSG00000035310
AA Change: I118T

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: 99.2%
3x: 98.5%
10x: 96.9%
20x: 94.3%

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: 106 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
Adra1a	T	A	14: 66,875,273 (GRCm39)	S83T	probably damaging	Het
Aff1	T	A	5: 103,994,905 (GRCm39)	Y1034*	probably null	Het
Ago3	A	T	4: 126,262,296 (GRCm39)	M418K	probably benign	Het
Alpk1	G	T	3: 127,481,241 (GRCm39)	N175K	possibly damaging	Het
Als2	A	G	1: 59,254,472 (GRCm39)	V295A	probably benign	Het
Arhgap32	A	G	9: 32,040,949 (GRCm39)	D67G	probably damaging	Het
Arhgap32	T	C	9: 32,172,076 (GRCm39)	C1619R	probably damaging	Het
Asns	T	G	6: 7,678,029 (GRCm39)	K350Q	probably benign	Het
Atp8b5	A	T	4: 43,356,980 (GRCm39)	D576V	probably damaging	Het
Atrnl1	A	G	19: 57,617,590 (GRCm39)	I122V	probably damaging	Het
Baz1b	T	G	5: 135,246,267 (GRCm39)	L572R	possibly damaging	Het
C4b	T	C	17: 34,952,380 (GRCm39)	T1220A	probably benign	Het
Carmil3	T	C	14: 55,738,778 (GRCm39)		probably null	Het
Ccndbp1	A	T	2: 120,839,003 (GRCm39)	T5S	probably benign	Het
Chaf1b	T	C	16: 93,681,430 (GRCm39)	V16A	probably damaging	Het
Chd8	C	A	14: 52,442,825 (GRCm39)	C575F	probably damaging	Het
Chrna10	G	A	7: 101,762,426 (GRCm39)	P255S	possibly damaging	Het
Clip1	T	C	5: 123,717,356 (GRCm39)	D1387G	probably damaging	Het
Col12a1	C	A	9: 79,585,776 (GRCm39)	V1228F	possibly damaging	Het
Cxcr5	T	C	9: 44,424,638 (GRCm39)	T340A	probably benign	Het
Cyp2e1	G	A	7: 140,343,821 (GRCm39)	V20I	possibly damaging	Het
Dchs1	A	G	7: 105,415,133 (GRCm39)	Y684H	probably damaging	Het
Dcun1d3	T	C	7: 119,456,887 (GRCm39)	E275G	probably damaging	Het
Dgcr8	G	A	16: 18,076,174 (GRCm39)	R4*	probably null	Het
Dglucy	A	T	12: 100,804,923 (GRCm39)	D168V	probably damaging	Het
Dnah1	T	A	14: 30,985,436 (GRCm39)	K3818N	probably damaging	Het
Dnajc17	T	C	2: 119,009,909 (GRCm39)	D239G	probably benign	Het
Dok2	C	T	14: 71,015,314 (GRCm39)	P347L	probably benign	Het
Elavl2	T	C	4: 91,142,379 (GRCm39)	R265G	probably null	Het
Elf1	T	A	14: 79,818,183 (GRCm39)	N567K	probably benign	Het
Epha8	A	T	4: 136,660,633 (GRCm39)	I695N	probably damaging	Het
Fam178b	C	A	1: 36,671,496 (GRCm39)		probably null	Het
Fam76a	A	T	4: 132,629,428 (GRCm39)		probably null	Het
Fam76a	A	G	4: 132,643,501 (GRCm39)	Y78H	probably damaging	Het
Fbn1	A	T	2: 125,166,839 (GRCm39)	C2026S	probably damaging	Het
Fbxo4	T	C	15: 3,998,523 (GRCm39)	T312A	probably benign	Het
Fscn2	T	C	11: 120,258,813 (GRCm39)	F453L	possibly damaging	Het
Gabrb2	T	C	11: 42,488,469 (GRCm39)	C312R	probably damaging	Het
Gba2	A	C	4: 43,568,315 (GRCm39)	L684R	probably damaging	Het
Golga2	T	A	2: 32,187,168 (GRCm39)	N89K	probably damaging	Het
Gpx6	C	T	13: 21,496,434 (GRCm39)	Q3*	probably null	Het
Grin1	T	A	2: 25,182,393 (GRCm39)	H956L	possibly damaging	Het
H2-Q7	T	G	17: 35,658,914 (GRCm39)	C122G	probably damaging	Het
Hcar2	C	G	5: 124,002,513 (GRCm39)	G330A	probably benign	Het
Hes3	A	G	4: 152,372,289 (GRCm39)	S37P	probably damaging	Het
Hs3st3b1	T	C	11: 63,780,086 (GRCm39)	H347R	probably benign	Het
Il1rl1	A	G	1: 40,489,348 (GRCm39)	R367G	probably damaging	Het
Kcnc1	G	T	7: 46,086,711 (GRCm39)	S570I	probably benign	Het
Kctd3	T	C	1: 188,706,665 (GRCm39)	I523M	probably damaging	Het
Klk14	G	A	7: 43,341,501 (GRCm39)	C51Y	probably damaging	Het
Kntc1	T	G	5: 123,954,825 (GRCm39)	M2081R	possibly damaging	Het
Krt87	A	G	15: 101,385,837 (GRCm39)	S253P	probably damaging	Het
Ktn1	T	A	14: 47,930,953 (GRCm39)		probably null	Het
Lair1	T	A	7: 4,012,731 (GRCm39)	M251L	probably benign	Het
Lama3	A	T	18: 12,582,601 (GRCm39)	H631L	probably benign	Het
Lamc1	T	C	1: 153,107,486 (GRCm39)	N1231S	probably damaging	Het
Lrit1	C	T	14: 36,784,193 (GRCm39)	T507M	possibly damaging	Het
Lrp11	A	G	10: 7,479,965 (GRCm39)	H345R	possibly damaging	Het
Lrp6	A	C	6: 134,456,502 (GRCm39)	S921A	probably benign	Het
Lrrc27	A	G	7: 138,822,614 (GRCm39)	T502A	probably benign	Het
Marf1	A	C	16: 13,970,321 (GRCm39)	S133A	probably benign	Het
Mga	C	T	2: 119,733,538 (GRCm39)	P129S	probably damaging	Het
Mgat4e	T	C	1: 134,469,063 (GRCm39)	N327S	probably damaging	Het
Mlh1	A	G	9: 111,068,866 (GRCm39)	Y499H	probably benign	Het
Mrgpra1	A	G	7: 46,985,218 (GRCm39)	S154P	probably damaging	Het
Myo1h	A	G	5: 114,498,660 (GRCm39)	I919V	possibly damaging	Het
Naalad2	T	C	9: 18,262,214 (GRCm39)	R442G	probably damaging	Het
Nat8f4	T	C	6: 85,878,481 (GRCm39)	H14R	probably benign	Het
Nav1	A	G	1: 135,386,477 (GRCm39)	S1184P	probably damaging	Het
Nckap1	T	A	2: 80,337,278 (GRCm39)	N986I	probably benign	Het
Ndufaf2	C	G	13: 108,189,314 (GRCm39)	A145P	probably damaging	Het
Nop9	AGAGGAGGAGGAGGAGGA	AGAGGAGGAGGAGGA	14: 55,983,859 (GRCm39)		probably benign	Het
Nphp4	G	A	4: 152,639,003 (GRCm39)	R878K	probably benign	Het
Nutm1	G	A	2: 112,079,281 (GRCm39)	A878V	probably benign	Het
Or4f56	A	T	2: 111,703,395 (GRCm39)	D268E	possibly damaging	Het
Or52e8b	A	C	7: 104,673,737 (GRCm39)	I150S	probably damaging	Het
Or5k1b	G	T	16: 58,580,911 (GRCm39)	F209L	probably damaging	Het
Orc6	T	A	8: 86,029,579 (GRCm39)	I41K	probably damaging	Het
Pikfyve	A	G	1: 65,307,005 (GRCm39)	T1798A	probably benign	Het
Ppp1r14a	A	T	7: 28,991,486 (GRCm39)	E98V	possibly damaging	Het
Prpf8	T	A	11: 75,383,331 (GRCm39)	D521E	probably damaging	Het
Pudp	A	G	18: 50,701,136 (GRCm39)	V199A	probably damaging	Het
Rab3c	T	C	13: 110,198,434 (GRCm39)	E198G	probably benign	Het
Ramac	T	A	7: 81,418,163 (GRCm39)	W73R	probably damaging	Het
Rbl2	A	G	8: 91,812,196 (GRCm39)	Y255C	probably damaging	Het
Rbm12	T	C	2: 155,938,484 (GRCm39)	D596G	possibly damaging	Het
Sipa1l3	A	G	7: 29,077,066 (GRCm39)	V902A	probably damaging	Het
Slc37a3	T	G	6: 39,314,157 (GRCm39)	Q485P	probably benign	Het
Slc44a3	T	C	3: 121,320,723 (GRCm39)	T93A	possibly damaging	Het
Slc66a1	G	T	4: 139,027,312 (GRCm39)	H343Q	probably benign	Het
Sun3	G	A	11: 8,988,266 (GRCm39)	L19F	probably benign	Het
Tas2r125	A	G	6: 132,886,866 (GRCm39)	I85V	probably benign	Het
Tenm4	A	C	7: 96,423,253 (GRCm39)	K683Q	probably damaging	Het
Tmprss11d	C	T	5: 86,454,140 (GRCm39)	V222M	probably damaging	Het
Tnip1	A	C	11: 54,806,365 (GRCm39)	S570A	possibly damaging	Het
Top1mt	G	A	15: 75,529,552 (GRCm39)	P554S	probably damaging	Het
Top1mt	A	G	15: 75,547,880 (GRCm39)	F69L	possibly damaging	Het
Ttc7	A	G	17: 87,648,325 (GRCm39)	K508R	probably benign	Het
Ttll4	A	T	1: 74,718,166 (GRCm39)	T6S	possibly damaging	Het
Xpo5	T	C	17: 46,533,643 (GRCm39)	Y500H	possibly damaging	Het
Xpot	C	T	10: 121,450,968 (GRCm39)		probably null	Het
Zbbx	T	C	3: 74,992,348 (GRCm39)	I268V	probably benign	Het
Zbtb40	G	A	4: 136,734,408 (GRCm39)	P360S	probably damaging	Het
Zfp324	T	C	7: 12,705,233 (GRCm39)	L474P	probably damaging	Het
Zfp398	A	G	6: 47,817,186 (GRCm39)	T9A	probably benign	Het
Zfp692	A	C	11: 58,200,997 (GRCm39)	S293R	probably null	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
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
R9599:Lin54	UTSW	5	100,598,546 (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'- ACTGTCTAAGGAAATACCAGCTTG -3'
(R):5'- TCTTTCCAAGCACGTAATTGATGAG -3'

Sequencing Primer
(F):5'- TGGCCTTTGACGACGTTAAAAGC -3'
(R):5'- GCACGTAATTGATGAGATTTAAGAGC -3'

Posted On

2015-12-29