Mutagenetix > Incidental Mutation

Incidental Mutation 'IGL02386:Syne4'

291549

Institutional Source

Australian Phenomics Network (link to record)

Gene Symbol

Syne4

Ensembl Gene

ENSMUSG00000019737

Gene Name

spectrin repeat containing, nuclear envelope family member 4

Synonyms

0610012K07Rik, AI428936, nesprin-4

Accession Numbers

Essential gene?

Probably non essential (E-score: 0.112) question?

Stock #

IGL02386

Quality Score

Status

Chromosome

Chromosomal Location

30014268-30018471 bp(+) (GRCm39)

Type of Mutation

missense

DNA Base Change (assembly)

C to A at 30015659 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Serine to Tyrosine at position 91 (S91Y)

Ref Sequence

ENSEMBL: ENSMUSP00000135637 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000054594] [ENSMUST00000060834] [ENSMUST00000136887] [ENSMUST00000137550] [ENSMUST00000176304] [ENSMUST00000176504] [ENSMUST00000177078] [ENSMUST00000176789]

AlphaFold

Q8CII8

Predicted Effect

possibly damaging
Transcript: ENSMUST00000054594
AA Change: S91Y

PolyPhen 2 Score 0.835 (Sensitivity: 0.84; Specificity: 0.93)

SMART Domains

Protein: ENSMUSP00000055874
Gene: ENSMUSG00000019737
AA Change: S91Y

Domain	Start	End	E-Value	Type
Blast:SPEC	96	198	2e-34	BLAST
low complexity region	222	234	N/A	INTRINSIC
low complexity region	290	315	N/A	INTRINSIC
KASH	335	388	2.85e-15	SMART

Predicted Effect

probably benign
Transcript: ENSMUST00000060834

SMART Domains

Protein: ENSMUSP00000051515
Gene: ENSMUSG00000042831

Domain	Start	End	E-Value	Type
Pfam:2OG-FeII_Oxy_2	23	224	3.5e-14	PFAM

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000132193

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000135319

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000135882

Predicted Effect

probably benign
Transcript: ENSMUST00000136887

SMART Domains

Protein: ENSMUSP00000121953
Gene: ENSMUSG00000042831

Domain	Start	End	E-Value	Type
Pfam:2OG-FeII_Oxy_2	3	210	2.1e-16	PFAM
Pfam:2OG-FeII_Oxy	82	213	1.2e-9	PFAM

Predicted Effect

probably benign
Transcript: ENSMUST00000137550

Predicted Effect

possibly damaging
Transcript: ENSMUST00000176304
AA Change: S91Y

PolyPhen 2 Score 0.906 (Sensitivity: 0.82; Specificity: 0.94)

SMART Domains

Protein: ENSMUSP00000135637
Gene: ENSMUSG00000019737
AA Change: S91Y

Domain	Start	End	E-Value	Type
Blast:SPEC	96	196	3e-34	BLAST
low complexity region	197	232	N/A	INTRINSIC
KASH	252	305	2.85e-15	SMART

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000176253

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000148858

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000176536

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000176006

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000176071

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000137870

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000144951

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000175672

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000175902

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000143369

Predicted Effect

probably benign
Transcript: ENSMUST00000176504

SMART Domains

Protein: ENSMUSP00000135844
Gene: ENSMUSG00000019737

Domain	Start	End	E-Value	Type
Blast:SPEC	92	170	2e-33	BLAST
low complexity region	194	206	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000176571

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000176232

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000177395

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000176965

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000176987

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000176984

Predicted Effect

probably benign
Transcript: ENSMUST00000177078

SMART Domains

Protein: ENSMUSP00000135895
Gene: ENSMUSG00000019737

Domain	Start	End	E-Value	Type
Blast:SPEC	88	150	4e-24	BLAST
low complexity region	174	186	N/A	INTRINSIC

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000177257

Predicted Effect

probably benign
Transcript: ENSMUST00000176789

Coding Region Coverage

Validation Efficiency

MGI Phenotype

FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] This gene is a member of the nesprin family of genes, that encode KASH (Klarsicht, Anc-1, Syne Homology) domain-containing proteins. In addition to the KASH domain, this protein also contains a coiled-coil and leucine zipper region, a spectrin repeat, and a kinesin-1 binding region. This protein localizes to the outer nuclear membrane, and is part of the linker of nucleoskeleton and cytoskeleton (LINC) complex in the nuclear envelope. LINC complexes are formed by SUN (Sad1, UNC-84)-KASH pairs, and are thought to mechanically couple nuclear components to the cytoskeleton. Mutations in this gene have been associated with progressive high-frequency hearing loss. The absence of this protein in mice also caused hearing loss, and changes in hair cell morphology in the ears. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Aug 2015]
PHENOTYPE: Mice homozygous for a knock-out allele exhibit hearing loss associated with outer hair cell degeneration. [provided by MGI curators]

Allele List at MGI

Other mutations in this stock

Total: 38 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
4930555F03Rik	G	A	8: 49,953,472 (GRCm39)		noncoding transcript	Het
Abhd17b	T	C	19: 21,658,263 (GRCm39)	Y167H	possibly damaging	Het
Ablim1	T	C	19: 57,123,086 (GRCm39)	D167G	probably damaging	Het
Bpnt1	G	T	1: 185,070,372 (GRCm39)	K21N	probably damaging	Het
Cables2	A	G	2: 179,903,431 (GRCm39)	V251A	probably benign	Het
Cyp2b13	T	C	7: 25,785,438 (GRCm39)	L269P	probably damaging	Het
Dhodh	A	G	8: 110,321,396 (GRCm39)	I330T	probably damaging	Het
Dnah5	T	A	15: 28,340,527 (GRCm39)	D2311E	probably damaging	Het
Dph1	T	C	11: 75,074,428 (GRCm39)	D128G	probably benign	Het
Dsg1c	T	A	18: 20,410,056 (GRCm39)	I508N	probably benign	Het
Eftud2	T	C	11: 102,742,580 (GRCm39)		probably null	Het
Fstl4	T	A	11: 52,664,698 (GRCm39)	H9Q	probably benign	Het
Glra3	A	T	8: 56,542,063 (GRCm39)	M269L	probably benign	Het
Gpatch8	C	A	11: 102,398,983 (GRCm39)	R83L	unknown	Het
Gss	A	G	2: 155,415,090 (GRCm39)	V205A	probably benign	Het
Ifi30	A	G	8: 71,217,405 (GRCm39)		probably benign	Het
Itch	T	A	2: 155,044,181 (GRCm39)	Y495*	probably null	Het
Lilrb4a	C	T	10: 51,367,322 (GRCm39)	Q22*	probably null	Het
Mest	T	C	6: 30,744,913 (GRCm39)	F201S	possibly damaging	Het
Myh8	T	A	11: 67,185,266 (GRCm39)	I839N	probably damaging	Het
Myo7a	C	T	7: 97,724,319 (GRCm39)	G1122E	probably damaging	Het
Ntan1	T	A	16: 13,653,063 (GRCm39)	M273K	probably benign	Het
Numa1	A	G	7: 101,656,739 (GRCm39)	K1548R	probably benign	Het
Obsl1	A	G	1: 75,469,161 (GRCm39)	V1260A	probably damaging	Het
Or4b12	T	A	2: 90,096,295 (GRCm39)	I160F	probably damaging	Het
Or4c10	T	C	2: 89,760,888 (GRCm39)	V245A	probably damaging	Het
Pde10a	A	G	17: 9,172,636 (GRCm39)	S669G	possibly damaging	Het
Ppargc1b	T	C	18: 61,456,222 (GRCm39)	D79G	probably damaging	Het
Rnf103	A	G	6: 71,486,202 (GRCm39)	T278A	probably benign	Het
Slc22a4	C	A	11: 53,879,598 (GRCm39)		probably benign	Het
Snx25	A	T	8: 46,494,386 (GRCm39)	M833K	possibly damaging	Het
Srrm1	G	A	4: 135,052,415 (GRCm39)	P658L	unknown	Het
Susd2	A	T	10: 75,475,929 (GRCm39)	Y357N	probably damaging	Het
Tgfbrap1	C	A	1: 43,114,981 (GRCm39)	G40C	probably damaging	Het
Tial1	A	G	7: 128,050,069 (GRCm39)	S94P	probably damaging	Het
Tle3	A	G	9: 61,301,941 (GRCm39)	T117A	possibly damaging	Het
Usp48	A	C	4: 137,331,834 (GRCm39)	R73S	possibly damaging	Het
Utrn	G	T	10: 12,297,352 (GRCm39)	D685E	possibly damaging	Het

Other mutations in Syne4

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL02237:Syne4	APN	7	30,015,988 (GRCm39)	splice site	probably null
R0089:Syne4	UTSW	7	30,018,344 (GRCm39)	missense	probably damaging	0.99
R0091:Syne4	UTSW	7	30,018,344 (GRCm39)	missense	probably damaging	0.99
R0448:Syne4	UTSW	7	30,014,345 (GRCm39)	start gained	probably benign
R0555:Syne4	UTSW	7	30,016,169 (GRCm39)	missense	probably damaging	0.99
R1205:Syne4	UTSW	7	30,014,761 (GRCm39)	missense	probably damaging	0.96
R1862:Syne4	UTSW	7	30,016,308 (GRCm39)	missense	probably benign	0.06
R1863:Syne4	UTSW	7	30,016,308 (GRCm39)	missense	probably benign	0.06
R4776:Syne4	UTSW	7	30,016,258 (GRCm39)	splice site	probably benign
R5325:Syne4	UTSW	7	30,018,401 (GRCm39)	missense	probably damaging	1.00
R6145:Syne4	UTSW	7	30,015,988 (GRCm39)	splice site	probably null
R6479:Syne4	UTSW	7	30,016,340 (GRCm39)	nonsense	probably null
R7823:Syne4	UTSW	7	30,018,280 (GRCm39)	missense	probably benign	0.09
R9013:Syne4	UTSW	7	30,017,418 (GRCm39)	missense	probably damaging	1.00
R9541:Syne4	UTSW	7	30,016,343 (GRCm39)	missense	probably benign	0.02
R9596:Syne4	UTSW	7	30,014,504 (GRCm39)	missense	probably benign	0.01
Z1088:Syne4	UTSW	7	30,015,761 (GRCm39)	missense	probably damaging	0.99

Posted On

2015-04-16