Mutagenetix > Incidental Mutation

Incidental Mutation 'R9031:Syne3'

687082

Institutional Source

Beutler Lab

Gene Symbol

Syne3

Ensembl Gene

ENSMUSG00000054150

Gene Name

spectrin repeat containing, nuclear envelope family member 3

Synonyms

4831426I19Rik, nesprin-3beta, nesprin-3alpha, nesprin-3

MMRRC Submission

068860-MU

Accession Numbers

Essential gene?

Non essential (E-score: 0.000) question?

Stock #

R9031 (G1)

Quality Score

225.009

Status

Validated

Chromosome

Chromosomal Location

104896192-104976068 bp(-) (GRCm39)

Type of Mutation

missense

DNA Base Change (assembly)

A to T at 104905871 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Serine to Arginine at position 897 (S897R)

Ref Sequence

ENSEMBL: ENSMUSP00000093090 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000067005] [ENSMUST00000095439] [ENSMUST00000109927]

AlphaFold

Q4FZC9

Predicted Effect

possibly damaging
Transcript: ENSMUST00000067005
AA Change: S810R

PolyPhen 2 Score 0.712 (Sensitivity: 0.86; Specificity: 0.92)

SMART Domains

Protein: ENSMUSP00000065771
Gene: ENSMUSG00000054150
AA Change: S810R

Domain	Start	End	E-Value	Type
Blast:SPEC	29	127	8e-24	BLAST
SPEC	136	237	1.01e-1	SMART
Blast:SPEC	252	446	9e-55	BLAST
low complexity region	447	459	N/A	INTRINSIC
low complexity region	495	514	N/A	INTRINSIC
SPEC	563	664	1.74e-1	SMART
Blast:SPEC	722	818	1e-12	BLAST
KASH	832	888	7.52e-24	SMART

Predicted Effect

probably benign
Transcript: ENSMUST00000095439
AA Change: S897R

PolyPhen 2 Score 0.447 (Sensitivity: 0.89; Specificity: 0.90)

SMART Domains

Protein: ENSMUSP00000093090
Gene: ENSMUSG00000054150
AA Change: S897R

Domain	Start	End	E-Value	Type
SPEC	7	109	1.22e-1	SMART
SPEC	223	324	1.01e-1	SMART
Blast:SPEC	339	533	2e-54	BLAST
low complexity region	534	546	N/A	INTRINSIC
low complexity region	582	601	N/A	INTRINSIC
SPEC	650	751	1.74e-1	SMART
Blast:SPEC	809	905	1e-12	BLAST
KASH	919	975	7.52e-24	SMART

Predicted Effect

possibly damaging
Transcript: ENSMUST00000109927
AA Change: S810R

PolyPhen 2 Score 0.712 (Sensitivity: 0.86; Specificity: 0.92)

SMART Domains

Protein: ENSMUSP00000105553
Gene: ENSMUSG00000054150
AA Change: S810R

Domain	Start	End	E-Value	Type
Blast:SPEC	29	127	8e-24	BLAST
SPEC	136	237	1.01e-1	SMART
Blast:SPEC	252	446	9e-55	BLAST
low complexity region	447	459	N/A	INTRINSIC
low complexity region	495	514	N/A	INTRINSIC
SPEC	563	664	1.74e-1	SMART
Blast:SPEC	722	818	1e-12	BLAST
KASH	832	888	7.52e-24	SMART

Coding Region Coverage

1x: 100.0%
3x: 99.9%
10x: 99.7%
20x: 99.2%

Validation Efficiency

100% (81/81)

Allele List at MGI

Other mutations in this stock

Total: 82 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
Abcc2	G	A	19: 43,810,466 (GRCm39)	R921H	probably benign	Het
Adcy5	A	G	16: 35,119,859 (GRCm39)	I1123V	probably damaging	Het
Agr2	G	C	12: 36,045,565 (GRCm39)	G17A	probably benign	Het
Akap6	A	T	12: 53,188,831 (GRCm39)	T2082S	probably benign	Het
Asxl3	G	T	18: 22,657,401 (GRCm39)	V1804F	probably damaging	Het
Atat1	A	G	17: 36,220,381 (GRCm39)	V37A	probably benign	Het
Atp1a3	A	T	7: 24,689,212 (GRCm39)		probably null	Het
Bpifb1	A	G	2: 154,051,848 (GRCm39)	T218A	probably benign	Het
C030006K11Rik	T	A	15: 76,607,961 (GRCm39)	Q19L	probably benign	Het
Ccdc138	T	C	10: 58,380,893 (GRCm39)	F508S	probably damaging	Het
Ccdc81	T	A	7: 89,542,358 (GRCm39)	M173L	probably benign	Het
Cdhr1	T	C	14: 36,815,976 (GRCm39)	I141V	probably benign	Het
Chia1	T	C	3: 106,035,777 (GRCm39)	F206L	probably benign	Het
Clca3a2	C	T	3: 144,511,475 (GRCm39)	G640E	probably damaging	Het
Clcn7	T	C	17: 25,376,497 (GRCm39)	V609A	probably damaging	Het
Cmklr2	T	C	1: 63,223,145 (GRCm39)	E30G	probably benign	Het
Col22a1	C	A	15: 71,753,523 (GRCm39)	G126*	probably null	Het
Cpne7	C	T	8: 123,856,951 (GRCm39)	P402L	probably damaging	Het
Ctcfl	A	T	2: 172,959,044 (GRCm39)	D227E	probably benign	Het
Cwf19l2	A	G	9: 3,417,942 (GRCm39)	D134G	probably benign	Het
Cyp2c65	C	A	19: 39,061,663 (GRCm39)	C216*	probably null	Het
Cyp2d12	T	A	15: 82,443,423 (GRCm39)	C462S	probably null	Het
Cyp4a12a	A	C	4: 115,189,199 (GRCm39)	*509Y	probably null	Het
Cyp4a12b	A	G	4: 115,290,865 (GRCm39)	M298V	probably benign	Het
Dennd4b	T	C	3: 90,178,188 (GRCm39)	V471A	probably benign	Het
Dlc1	A	G	8: 37,405,055 (GRCm39)	S245P	possibly damaging	Het
Dnah1	C	T	14: 31,001,128 (GRCm39)	G2406S	probably benign	Het
Dnah8	A	G	17: 30,956,401 (GRCm39)	K2127R	probably damaging	Het
Dusp13b	G	A	14: 21,790,233 (GRCm39)	R38C	probably benign	Het
Ebf2	T	A	14: 67,472,594 (GRCm39)	I4N	probably benign	Het
Eef1ece2	C	T	16: 20,459,375 (GRCm39)	P570L	probably damaging	Het
Fcgbp	A	G	7: 27,790,908 (GRCm39)	N723S	possibly damaging	Het
Galnt15	T	A	14: 31,770,027 (GRCm39)	V368E	probably damaging	Het
Garem2	A	G	5: 30,313,262 (GRCm39)	E42G	possibly damaging	Het
Gcc1	C	T	6: 28,418,182 (GRCm39)	S717N	probably damaging	Het
Gfm2	T	C	13: 97,309,201 (GRCm39)		probably null	Het
Helb	T	C	10: 119,920,790 (GRCm39)	D1051G	possibly damaging	Het
Helz2	T	A	2: 180,874,261 (GRCm39)	I2078F	possibly damaging	Het
Hsph1	A	T	5: 149,553,270 (GRCm39)	V297D	probably damaging	Het
Ifnar1	A	G	16: 91,302,079 (GRCm39)	Y518C	probably benign	Het
Kcnip2	T	A	19: 45,783,210 (GRCm39)	D153V	probably damaging	Het
Kif15	A	T	9: 122,846,492 (GRCm39)		probably benign	Het
Kif21b	T	C	1: 136,073,042 (GRCm39)	F147L	probably damaging	Het
Klhl29	T	C	12: 5,140,537 (GRCm39)	R702G	probably damaging	Het
Lemd3	C	T	10: 120,767,878 (GRCm39)	E667K	possibly damaging	Het
Loxl3	T	C	6: 83,012,503 (GRCm39)	L14P	probably damaging	Het
Lrrd1	A	T	5: 3,900,963 (GRCm39)	K423*	probably null	Het
Mia2	A	G	12: 59,155,586 (GRCm39)	D433G	probably damaging	Het
Mpp2	G	T	11: 101,954,099 (GRCm39)	A216E	probably benign	Het
Mro	T	C	18: 74,009,911 (GRCm39)		probably null	Het
Mybpc1	T	G	10: 88,358,906 (GRCm39)	Y1081S	probably damaging	Het
Myh8	T	G	11: 67,190,141 (GRCm39)	S1260R	possibly damaging	Het
Myo3b	T	C	2: 70,082,094 (GRCm39)	V618A	probably damaging	Het
Naip2	T	G	13: 100,314,776 (GRCm39)	D334A	possibly damaging	Het
Naip5	T	A	13: 100,356,338 (GRCm39)	E1092D	probably benign	Het
Nlrp4c	T	C	7: 6,107,608 (GRCm39)	*983Q	probably null	Het
Nlrp9a	T	G	7: 26,257,698 (GRCm39)	F439V	probably damaging	Het
Nploc4	A	T	11: 120,319,368 (GRCm39)	L64H	probably damaging	Het
Ola1	T	C	2: 72,924,060 (GRCm39)	E246G	probably benign	Het
Otof	G	A	5: 30,537,532 (GRCm39)	S1259F	probably benign	Het
Pde4dip	T	C	3: 97,599,675 (GRCm39)	T2438A	probably damaging	Het
Pex1	A	G	5: 3,686,844 (GRCm39)	T1242A	probably damaging	Het
Pink1	A	T	4: 138,043,056 (GRCm39)		probably benign	Het
Prkcq	A	G	2: 11,251,819 (GRCm39)	T219A	probably damaging	Het
Ptcd3	A	T	6: 71,880,458 (GRCm39)	Y88*	probably null	Het
Ptpru	A	G	4: 131,515,691 (GRCm39)	Y888H	probably damaging	Het
Rapgef6	A	G	11: 54,578,667 (GRCm39)	N1063S	probably benign	Het
Slc1a4	G	A	11: 20,282,532 (GRCm39)		probably benign	Het
Slc4a4	T	C	5: 89,205,568 (GRCm39)		probably benign	Het
Slc6a18	A	T	13: 73,819,822 (GRCm39)	N249K	possibly damaging	Het
Slco2b1	T	G	7: 99,338,214 (GRCm39)	I104L	probably damaging	Het
Tlcd5	C	T	9: 43,022,664 (GRCm39)	R230Q	probably benign	Het
Tnni3k	A	G	3: 154,744,146 (GRCm39)	S69P	probably damaging	Het
Tnpo2	A	G	8: 85,780,163 (GRCm39)	K700E	probably benign	Het
Top3a	T	C	11: 60,636,695 (GRCm39)	K657E	probably damaging	Het
Trgv4	C	T	13: 19,369,169 (GRCm39)	Q7*	probably null	Het
Trim6	T	C	7: 103,875,159 (GRCm39)	L132P	probably damaging	Het
Tshz1	T	C	18: 84,032,987 (GRCm39)	T474A	probably benign	Het
Unc13d	AATGCCTCCCATGCC	AATGCCTCCCATGCCTCCCATGCC	11: 115,958,998 (GRCm39)		probably benign	Het
Vmn1r179	A	T	7: 23,628,234 (GRCm39)	I142L	probably benign	Het
Zbtb2	A	T	10: 4,319,183 (GRCm39)	F281Y	probably damaging	Het
Zfp318	T	C	17: 46,723,433 (GRCm39)	V1812A	probably benign	Het

Other mutations in Syne3

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL01154:Syne3	APN	12	104,924,328 (GRCm39)	missense	probably benign	0.00
IGL01986:Syne3	APN	12	104,934,259 (GRCm39)	missense	probably damaging	1.00
IGL02303:Syne3	APN	12	104,929,553 (GRCm39)	missense	probably damaging	1.00
IGL02469:Syne3	APN	12	104,920,565 (GRCm39)	missense	probably benign	0.08
IGL03127:Syne3	APN	12	104,909,687 (GRCm39)	missense	probably benign	0.02
BB008:Syne3	UTSW	12	104,929,491 (GRCm39)	missense	probably damaging	0.97
BB018:Syne3	UTSW	12	104,929,491 (GRCm39)	missense	probably damaging	0.97
PIT4791001:Syne3	UTSW	12	104,929,438 (GRCm39)	missense	probably benign
R0436:Syne3	UTSW	12	104,913,183 (GRCm39)	missense	possibly damaging	0.95
R0471:Syne3	UTSW	12	104,909,685 (GRCm39)	missense	probably benign	0.00
R0613:Syne3	UTSW	12	104,924,371 (GRCm39)	missense	probably benign
R0662:Syne3	UTSW	12	104,927,769 (GRCm39)	missense	probably benign	0.44
R0707:Syne3	UTSW	12	104,935,619 (GRCm39)	missense	probably damaging	0.98
R1321:Syne3	UTSW	12	104,942,055 (GRCm39)	missense	probably benign	0.14
R1494:Syne3	UTSW	12	104,921,841 (GRCm39)	missense	possibly damaging	0.87
R2035:Syne3	UTSW	12	104,924,386 (GRCm39)	missense	probably benign	0.00
R2147:Syne3	UTSW	12	104,919,357 (GRCm39)	missense	probably damaging	1.00
R2326:Syne3	UTSW	12	104,935,493 (GRCm39)	missense	probably damaging	1.00
R2923:Syne3	UTSW	12	104,934,343 (GRCm39)	missense	probably damaging	1.00
R3710:Syne3	UTSW	12	104,909,697 (GRCm39)	missense	possibly damaging	0.86
R3946:Syne3	UTSW	12	104,924,325 (GRCm39)	missense	probably damaging	1.00
R4542:Syne3	UTSW	12	104,935,503 (GRCm39)	missense	probably benign	0.00
R4544:Syne3	UTSW	12	104,925,728 (GRCm39)	missense	probably damaging	1.00
R5110:Syne3	UTSW	12	104,909,629 (GRCm39)	missense	probably benign	0.10
R5256:Syne3	UTSW	12	104,942,139 (GRCm39)	start codon destroyed	probably null	1.00
R5490:Syne3	UTSW	12	104,921,931 (GRCm39)	missense	probably damaging	1.00
R5616:Syne3	UTSW	12	104,921,937 (GRCm39)	missense	probably damaging	1.00
R5730:Syne3	UTSW	12	104,927,713 (GRCm39)	missense	probably benign	0.02
R5941:Syne3	UTSW	12	104,913,251 (GRCm39)	missense	probably benign
R6208:Syne3	UTSW	12	104,909,622 (GRCm39)	missense	probably benign	0.12
R6456:Syne3	UTSW	12	104,906,963 (GRCm39)	missense	possibly damaging	0.87
R6566:Syne3	UTSW	12	104,912,966 (GRCm39)	missense	probably benign	0.00
R6957:Syne3	UTSW	12	104,920,561 (GRCm39)	missense	probably damaging	1.00
R7251:Syne3	UTSW	12	104,927,830 (GRCm39)	frame shift	probably null
R7388:Syne3	UTSW	12	104,934,167 (GRCm39)	missense	probably damaging	1.00
R7591:Syne3	UTSW	12	104,906,863 (GRCm39)	critical splice donor site	probably null
R7614:Syne3	UTSW	12	104,912,901 (GRCm39)	missense	not run
R7740:Syne3	UTSW	12	104,920,546 (GRCm39)	missense	probably benign	0.01
R7763:Syne3	UTSW	12	104,963,754 (GRCm39)	start gained	probably benign
R7931:Syne3	UTSW	12	104,929,491 (GRCm39)	missense	probably damaging	0.97
R8973:Syne3	UTSW	12	104,925,654 (GRCm39)	critical splice donor site	probably null
R9263:Syne3	UTSW	12	104,934,415 (GRCm39)	missense	probably damaging	1.00
R9579:Syne3	UTSW	12	104,942,107 (GRCm39)	missense	probably damaging	0.96
R9665:Syne3	UTSW	12	104,924,247 (GRCm39)	missense	probably benign	0.01
R9668:Syne3	UTSW	12	104,898,468 (GRCm39)	missense	probably damaging	1.00

Predicted Primers

PCR Primer
(F):5'- CCAAAGCTGATTCTCCATCTGTG -3'
(R):5'- GCCATATCGACCACATTCCG -3'

Sequencing Primer
(F):5'- AAAGCTGATTCTCCATCTGTGATCTC -3'
(R):5'- GCGCCTAGCTGACTTTTT -3'

Posted On

2021-11-19