Mutagenetix > Incidental Mutation

Incidental Mutation 'R0646:Synm'

57155

Institutional Source

Beutler Lab

Gene Symbol

Synm

Ensembl Gene

ENSMUSG00000030554

Gene Name

synemin, intermediate filament protein

Synonyms

4930412K21Rik, Dmn, Synemin

MMRRC Submission

038831-MU

Accession Numbers

Essential gene?

Non essential (E-score: 0.000) question?

Stock #

R0646 (G1)

Quality Score

144

Status

Validated

Chromosome

Chromosomal Location

67730160-67759742 bp(-) (GRCm38)

Type of Mutation

missense

DNA Base Change (assembly)

T to A at 67759168 bp (GRCm38)

Zygosity

Heterozygous

Amino Acid Change

Aspartic acid to Valine at position 154 (D154V)

Ref Sequence

ENSEMBL: ENSMUSP00000147089 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000051389] [ENSMUST00000074233] [ENSMUST00000208231] [ENSMUST00000208815]

AlphaFold

Q70IV5

Predicted Effect

probably benign
Transcript: ENSMUST00000051389
AA Change: D154V

PolyPhen 2 Score 0.070 (Sensitivity: 0.94; Specificity: 0.84)

SMART Domains

Protein: ENSMUSP00000050987
Gene: ENSMUSG00000030554
AA Change: D154V

Domain	Start	End	E-Value	Type
Pfam:Filament	10	321	2.7e-38	PFAM
low complexity region	1248	1257	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000074233
AA Change: D154V

PolyPhen 2 Score 0.070 (Sensitivity: 0.94; Specificity: 0.84)

SMART Domains

Protein: ENSMUSP00000073855
Gene: ENSMUSG00000030554
AA Change: D154V

Domain	Start	End	E-Value	Type
Filament	10	321	6.4e-38	SMART
internal_repeat_1	1089	1185	3.03e-7	PROSPERO
internal_repeat_1	1351	1454	3.03e-7	PROSPERO
low complexity region	1550	1559	N/A	INTRINSIC

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000207427

Predicted Effect

probably benign
Transcript: ENSMUST00000208231
AA Change: D154V

PolyPhen 2 Score 0.070 (Sensitivity: 0.94; Specificity: 0.84)

Predicted Effect

probably benign
Transcript: ENSMUST00000208764

Predicted Effect

probably benign
Transcript: ENSMUST00000208815
AA Change: D154V

PolyPhen 2 Score 0.034 (Sensitivity: 0.95; Specificity: 0.82)

Meta Mutation Damage Score

0.0898

Coding Region Coverage

1x: 99.2%
3x: 98.7%
10x: 97.4%
20x: 95.7%

Validation Efficiency

95% (123/130)

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 an intermediate filament (IF) family member. IF proteins are cytoskeletal proteins that confer resistance to mechanical stress and are encoded by a dispersed multigene family. This protein has been found to form a linkage between desmin, which is a subunit of the IF network, and the extracellular matrix, and provides an important structural support in muscle. Two alternatively spliced variants encoding different isoforms have been described for this gene. [provided by RefSeq, Jul 2008]
PHENOTYPE: Mice homozygous for a knock-out allele exhibit a mild skeletal muscle phenotype characterized by abnormal muscle fiber morphology and increased sarcolemmal deformability and susceptibility to injury. [provided by MGI curators]

Allele List at MGI

Other mutations in this stock

Total: 125 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
0610010F05Rik	C	T	11: 23,575,491	R716H	probably damaging	Het
4930432E11Rik	C	T	7: 29,561,285		noncoding transcript	Het
A430078G23Rik	T	C	8: 3,386,959	Y250H	probably damaging	Het
Abcb11	A	G	2: 69,285,283	I579T	probably damaging	Het
Abcc9	T	C	6: 142,682,104	N400S	probably benign	Het
Adarb2	T	C	13: 8,731,819	L577P	probably damaging	Het
Agt	A	C	8: 124,557,113	N422K	probably damaging	Het
Ahnak	A	T	19: 9,013,402	K4017*	probably null	Het
Akap13	C	A	7: 75,747,746	Q2575K	probably damaging	Het
Aldh3a2	A	T	11: 61,253,715	I339K	probably damaging	Het
Alox15	G	T	11: 70,345,624	Y483*	probably null	Het
Ampd1	A	T	3: 103,099,597	I713F	probably damaging	Het
Amph	A	T	13: 19,113,116	E344V	possibly damaging	Het
Arid5b	A	G	10: 68,096,977	S1032P	probably damaging	Het
Armc8	C	A	9: 99,505,688	L393F	probably damaging	Het
Bpnt1	A	G	1: 185,345,426		probably null	Het
Cachd1	G	A	4: 100,988,221	R970H	probably damaging	Het
Cd207	T	C	6: 83,675,756	T131A	probably benign	Het
Cd83	G	A	13: 43,797,533	V54I	probably benign	Het
Cfap43	T	C	19: 47,763,676	K1086E	probably benign	Het
Cfap65	A	T	1: 74,902,169	V1837E	probably benign	Het
Clcnka	T	A	4: 141,396,606	H89L	probably benign	Het
Cnga4	T	C	7: 105,404,975	I50T	possibly damaging	Het
Cog5	A	G	12: 31,837,359		probably benign	Het
Col11a2	T	A	17: 34,059,348		probably null	Het
Col28a1	T	G	6: 8,175,291	I186L	possibly damaging	Het
Col4a2	T	A	8: 11,431,252	M808K	probably benign	Het
Copb2	A	G	9: 98,563,475		probably benign	Het
Dbnl	G	A	11: 5,795,441		probably benign	Het
Dbx2	T	C	15: 95,654,612	T51A	possibly damaging	Het
Dcp1a	A	T	14: 30,502,885	M123L	probably damaging	Het
Ddx42	T	A	11: 106,232,833	F217I	probably benign	Het
Dlc1	T	C	8: 36,858,051	T367A	probably benign	Het
Dmgdh	A	T	13: 93,752,355	T834S	probably benign	Het
Dnah8	T	C	17: 30,684,173	S929P	probably damaging	Het
Dnase1l2	C	A	17: 24,441,082	V271L	possibly damaging	Het
Dsc1	T	C	18: 20,096,057	Y392C	probably damaging	Het
Edn1	T	C	13: 42,305,242		probably benign	Het
Eps8l3	T	C	3: 107,884,810	L351P	probably damaging	Het
F12	G	A	13: 55,422,483		probably benign	Het
Fam47e	T	C	5: 92,578,458		probably benign	Het
Fcrl5	C	A	3: 87,442,013	Q32K	probably benign	Het
Fndc1	C	T	17: 7,741,673	V1637I	possibly damaging	Het
Foxg1	G	T	12: 49,384,567		probably benign	Het
Frrs1	A	T	3: 116,902,421	I530F	possibly damaging	Het
Galnt5	A	T	2: 57,999,085	K232N	probably benign	Het
Ggt5	G	A	10: 75,602,648	V68M	probably damaging	Het
Gm11639	G	A	11: 104,720,501	D390N	probably benign	Het
Gm13084	A	C	4: 143,812,585	S113A	possibly damaging	Het
Gm16519	T	C	17: 70,929,106	C17R	probably benign	Het
Gm17535	A	G	9: 3,035,804	Y224C	probably null	Het
Gm884	T	A	11: 103,613,160	K485*	probably null	Het
Gm9631	T	G	11: 121,945,629	D28A	probably damaging	Het
Gpx2	T	C	12: 76,795,313	I21M	probably benign	Het
H2-Q2	T	G	17: 35,345,685	D354E	probably damaging	Het
Icam2	A	T	11: 106,380,891	I71K	probably damaging	Het
Il12a	T	C	3: 68,697,890		probably benign	Het
Insm2	C	G	12: 55,600,440	A323G	probably benign	Het
Itga1	T	C	13: 114,968,299	T1064A	probably benign	Het
Itgad	T	A	7: 128,174,004	V11E	possibly damaging	Het
Kctd15	C	T	7: 34,644,881	S115N	probably damaging	Het
Klra5	A	G	6: 129,903,564	W124R	probably damaging	Het
Kng2	T	A	16: 22,987,736	D571V	probably benign	Het
Kpna6	A	T	4: 129,650,790	F380I	probably benign	Het
Lipo1	A	T	19: 33,784,769	Y109*	probably null	Het
Man2a2	T	C	7: 80,363,197	H540R	possibly damaging	Het
Map2k4	T	C	11: 65,712,275	E188G	probably damaging	Het
Mast4	T	C	13: 102,758,744		probably benign	Het
Mbtd1	A	G	11: 93,905,212	D25G	probably damaging	Het
Med13	T	A	11: 86,331,089	Q238L	possibly damaging	Het
Mmachc	A	G	4: 116,703,654	Y215H	probably damaging	Het
Mtor	T	A	4: 148,484,354	Y1110*	probably null	Het
Nek2	A	G	1: 191,822,219	N57D	probably damaging	Het
Nek7	ACCCC	ACCC	1: 138,515,693		probably null	Het
Neo1	G	T	9: 58,931,034	T489K	probably damaging	Het
Neu1	T	A	17: 34,934,760	Y387N	probably damaging	Het
Nfasc	A	T	1: 132,608,438	C586*	probably null	Het
Nle1	G	A	11: 82,904,845	L259F	probably damaging	Het
Nrde2	G	A	12: 100,143,846	Q309*	probably null	Het
Nufip2	C	T	11: 77,686,453	H76Y	probably benign	Het
Olfr1330	A	C	4: 118,893,490	T136P	probably damaging	Het
Olfr1383	A	T	11: 49,524,578	N285I	probably damaging	Het
Olfr466	A	T	13: 65,153,063	I280F	probably damaging	Het
Olfr584	T	C	7: 103,086,151	F206S	probably damaging	Het
Olfr670	A	T	7: 104,959,811	I307N	probably benign	Het
Olfr731	A	T	14: 50,238,639	I82N	probably damaging	Het
Pcdhb5	A	G	18: 37,321,622	T352A	probably benign	Het
Pcdhb7	A	T	18: 37,343,389	D526V	probably damaging	Het
Phkg1	A	T	5: 129,864,553		probably null	Het
Plg	C	T	17: 12,418,736	T744M	probably damaging	Het
Plxnd1	A	C	6: 115,958,699		probably benign	Het
Poglut1	A	T	16: 38,529,475	I312N	probably damaging	Het
Ppp1r16a	C	T	15: 76,690,799		probably benign	Het
Ppt1	A	G	4: 122,844,099	M77V	probably benign	Het
Pramel5	G	T	4: 144,271,620	T351N	probably damaging	Het
Psmb4	G	A	3: 94,884,964	R216C	probably benign	Het
Ptprd	T	C	4: 76,084,403	T699A	probably damaging	Het
Retreg3	A	T	11: 101,098,629		probably benign	Het
Scaper	G	A	9: 55,758,056	A389V	probably damaging	Het
Serinc5	G	A	13: 92,688,737	D225N	possibly damaging	Het
Slco1a1	T	G	6: 141,925,754		probably benign	Het
Snapc1	C	T	12: 73,975,032	R81C	probably damaging	Het
Sod3	A	T	5: 52,368,079	D40V	probably benign	Het
Sorcs3	C	A	19: 48,206,295	A39E	probably benign	Het
Spon1	A	T	7: 114,039,821	T761S	probably benign	Het
Syde2	A	G	3: 146,014,249		probably null	Het
Synpo2	T	C	3: 123,114,449	E406G	probably damaging	Het
Tcea3	T	A	4: 136,248,071	L8*	probably null	Het
Tec	G	A	5: 72,823,497	L33F	probably damaging	Het
Tex15	T	A	8: 33,582,326	S2634T	possibly damaging	Het
Tg	T	A	15: 66,729,626	Y162N	probably damaging	Het
Tmem8b	G	A	4: 43,690,123	V853I	probably benign	Het
Togaram1	A	G	12: 65,021,466	K1748E	probably damaging	Het
Ttn	T	C	2: 76,898,478		probably benign	Het
Usp36	C	T	11: 118,273,021	D234N	probably damaging	Het
Usp40	G	A	1: 87,978,522	P664S	probably benign	Het
Vmn1r54	T	A	6: 90,269,653	L183H	probably benign	Het
Vmn1r58	T	G	7: 5,410,677	I185L	probably benign	Het
Wnt8a	A	T	18: 34,547,565	R328W	probably benign	Het
Yars	A	G	4: 129,213,939		probably benign	Het
Zbtb49	A	C	5: 38,200,674	M745R	probably damaging	Het
Zeb1	T	G	18: 5,759,027	F162V	probably damaging	Het
Zfp369	A	T	13: 65,297,548	H835L	probably damaging	Het
Zic5	A	G	14: 122,463,939	V460A	unknown	Het
Zp3	A	G	5: 135,984,356	N181D	possibly damaging	Het

Other mutations in Synm

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL00161:Synm	APN	7	67734915	missense	probably benign	0.01
IGL01567:Synm	APN	7	67735232	missense	probably damaging	0.99
IGL01867:Synm	APN	7	67733474	missense	probably benign	0.13
IGL01870:Synm	APN	7	67736118	missense	possibly damaging	0.86
IGL01951:Synm	APN	7	67739137	missense	probably damaging	1.00
IGL02264:Synm	APN	7	67734396	missense	probably damaging	0.99
IGL02892:Synm	APN	7	67735056	missense	probably damaging	1.00
PIT4449001:Synm	UTSW	7	67735277	missense	probably benign
R0032:Synm	UTSW	7	67733927	missense	possibly damaging	0.90
R0194:Synm	UTSW	7	67734924	missense	probably damaging	1.00
R0345:Synm	UTSW	7	67735821	missense	probably benign	0.13
R0453:Synm	UTSW	7	67736882	missense	possibly damaging	0.92
R0847:Synm	UTSW	7	67735056	missense	probably damaging	1.00
R0919:Synm	UTSW	7	67735347	missense	probably damaging	1.00
R1484:Synm	UTSW	7	67736332	missense	probably damaging	1.00
R1700:Synm	UTSW	7	67759628	start codon destroyed	probably null	0.98
R1715:Synm	UTSW	7	67736303	missense	probably damaging	1.00
R1796:Synm	UTSW	7	67734000	missense	possibly damaging	0.77
R1799:Synm	UTSW	7	67735959	missense	probably damaging	1.00
R2116:Synm	UTSW	7	67733595	missense	probably benign	0.18
R2979:Synm	UTSW	7	67736260	missense	probably damaging	1.00
R4116:Synm	UTSW	7	67734657	missense	possibly damaging	0.50
R4172:Synm	UTSW	7	67735361	missense	probably damaging	1.00
R4981:Synm	UTSW	7	67734487	missense	probably benign	0.02
R5114:Synm	UTSW	7	67735658	missense	probably damaging	1.00
R5276:Synm	UTSW	7	67734689	missense	probably benign	0.08
R5446:Synm	UTSW	7	67735974	missense	probably benign	0.17
R5592:Synm	UTSW	7	67759516	missense	probably damaging	1.00
R5960:Synm	UTSW	7	67735746	missense	probably damaging	1.00
R6025:Synm	UTSW	7	67734938	missense	possibly damaging	0.78
R6034:Synm	UTSW	7	67734905	missense	probably damaging	1.00
R6034:Synm	UTSW	7	67734905	missense	probably damaging	1.00
R6445:Synm	UTSW	7	67733645	missense	probably benign
R6446:Synm	UTSW	7	67734966	missense	probably damaging	1.00
R6492:Synm	UTSW	7	67736061	missense	probably benign	0.00
R6526:Synm	UTSW	7	67735583	missense	possibly damaging	0.62
R6612:Synm	UTSW	7	67733516	missense	probably damaging	0.99
R6646:Synm	UTSW	7	67735127	missense	probably damaging	1.00
R6708:Synm	UTSW	7	67733246	missense	possibly damaging	0.72
R6957:Synm	UTSW	7	67736100	missense	probably benign	0.28
R6988:Synm	UTSW	7	67733658	missense	probably damaging	1.00
R7208:Synm	UTSW	7	67734915	missense	probably benign	0.01
R7320:Synm	UTSW	7	67735380	missense	possibly damaging	0.89
R7417:Synm	UTSW	7	67733206	makesense	probably null
R7425:Synm	UTSW	7	67733446	missense	probably damaging	0.99
R7468:Synm	UTSW	7	67733223	missense	unknown
R7733:Synm	UTSW	7	67735945	splice site	probably null
R7782:Synm	UTSW	7	67734966	missense	probably damaging	1.00
R7826:Synm	UTSW	7	67735589	missense	probably damaging	1.00
R7971:Synm	UTSW	7	67735235	missense	possibly damaging	0.74
R8177:Synm	UTSW	7	67734065	missense	probably benign	0.00
R8190:Synm	UTSW	7	67733906	missense	probably benign
R8225:Synm	UTSW	7	67759049	missense	probably benign	0.16
R8414:Synm	UTSW	7	67733763	missense	probably benign	0.12
R8880:Synm	UTSW	7	67736708	missense	possibly damaging	0.84
R8978:Synm	UTSW	7	67734924	missense	probably damaging	1.00
R9027:Synm	UTSW	7	67734692	missense	probably damaging	1.00
R9089:Synm	UTSW	7	67759018	missense	probably damaging	0.97
R9281:Synm	UTSW	7	67736300	nonsense	probably null
R9430:Synm	UTSW	7	67733433	missense	possibly damaging	0.95
R9732:Synm	UTSW	7	67735904	missense	probably damaging	1.00
Z1088:Synm	UTSW	7	67751886	missense	probably damaging	1.00

Predicted Primers

PCR Primer
(F):5'- TGCGTGTACAGGCTATTAGGGAAGG -3'
(R):5'- ACGACAGCAGCTAGATGAACTGAAC -3'

Sequencing Primer
(F):5'- AACTCCAGCGCCTGGTTC -3'
(R):5'- TAGATGAACTGAACTGGTCCAC -3'

Posted On

2013-07-11