Mutagenetix > Incidental Mutation

Incidental Mutation 'IGL03405:Sptan1'

421560

Institutional Source

Australian Phenomics Network (link to record)

Gene Symbol

Sptan1

Ensembl Gene

ENSMUSG00000057738

Gene Name

spectrin alpha, non-erythrocytic 1

Synonyms

alpha-fodrin, alphaII-spectrin, Spna2, 2610027H02Rik, Spna-2

Accession Numbers

Essential gene?

Essential (E-score: 1.000) question?

Stock #

IGL03405

Quality Score

Status

Chromosome

Chromosomal Location

29855572-29921463 bp(+) (GRCm39)

Type of Mutation

missense

DNA Base Change (assembly)

A to G at 29915593 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Threonine to Alanine at position 2013 (T2013A)

Ref Sequence

ENSEMBL: ENSMUSP00000092697 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000046257] [ENSMUST00000095083] [ENSMUST00000100225] [ENSMUST00000113717] [ENSMUST00000113719] [ENSMUST00000129241]

AlphaFold

P16546

Predicted Effect

possibly damaging
Transcript: ENSMUST00000046257
AA Change: T1993A

PolyPhen 2 Score 0.466 (Sensitivity: 0.89; Specificity: 0.90)

SMART Domains

Protein: ENSMUSP00000047792
Gene: ENSMUSG00000057738
AA Change: T1993A

Domain	Start	End	E-Value	Type
SPEC	47	146	2.1e-30	SMART
SPEC	152	252	2.6e-35	SMART
SPEC	258	358	4.93e-36	SMART
SPEC	364	464	1.08e-27	SMART
SPEC	470	570	9.01e-30	SMART
SPEC	576	675	3.52e-32	SMART
SPEC	681	781	2.15e-36	SMART
SPEC	787	887	2.45e-40	SMART
SPEC	893	1068	1.18e-24	SMART
SH3	970	1025	8.24e-18	SMART
SPEC	1074	1210	6.52e-27	SMART
SPEC	1216	1316	1.44e-37	SMART
SPEC	1322	1422	4.43e-29	SMART
SPEC	1428	1528	7.54e-32	SMART
SPEC	1534	1635	9.65e-30	SMART
SPEC	1641	1741	2.32e-32	SMART
SPEC	1747	1847	6.98e-36	SMART
SPEC	1853	1953	1.53e-32	SMART
SPEC	1959	2060	6.23e-24	SMART
SPEC	2074	2174	2.08e-11	SMART
SPEC	2188	2289	1.07e-4	SMART
EFh	2307	2335	5.78e-7	SMART
EFh	2350	2378	3.85e-3	SMART
efhand_Ca_insen	2382	2451	6.74e-32	SMART

Predicted Effect

probably damaging
Transcript: ENSMUST00000095083
AA Change: T2013A

PolyPhen 2 Score 0.992 (Sensitivity: 0.70; Specificity: 0.97)

SMART Domains

Protein: ENSMUSP00000092697
Gene: ENSMUSG00000057738
AA Change: T2013A

Domain	Start	End	E-Value	Type
SPEC	47	146	2.1e-30	SMART
SPEC	152	252	2.6e-35	SMART
SPEC	258	358	4.93e-36	SMART
SPEC	364	464	1.08e-27	SMART
SPEC	470	570	9.01e-30	SMART
SPEC	576	675	3.52e-32	SMART
SPEC	681	781	2.15e-36	SMART
SPEC	787	887	2.45e-40	SMART
SPEC	893	1088	1.56e-24	SMART
SH3	970	1025	8.24e-18	SMART
SPEC	1094	1230	6.52e-27	SMART
SPEC	1236	1336	1.44e-37	SMART
SPEC	1342	1442	4.43e-29	SMART
SPEC	1448	1548	7.54e-32	SMART
SPEC	1554	1655	9.65e-30	SMART
SPEC	1661	1761	2.32e-32	SMART
SPEC	1767	1867	6.98e-36	SMART
SPEC	1873	1973	1.53e-32	SMART
SPEC	1979	2080	6.23e-24	SMART
SPEC	2094	2194	2.08e-11	SMART
SPEC	2208	2309	1.07e-4	SMART
EFh	2327	2355	5.78e-7	SMART
EFh	2370	2398	3.85e-3	SMART
efhand_Ca_insen	2402	2471	6.74e-32	SMART

Predicted Effect

probably benign
Transcript: ENSMUST00000100225
AA Change: T2018A

PolyPhen 2 Score 0.326 (Sensitivity: 0.90; Specificity: 0.89)

SMART Domains

Protein: ENSMUSP00000097797
Gene: ENSMUSG00000057738
AA Change: T2018A

Domain	Start	End	E-Value	Type
SPEC	47	146	2.1e-30	SMART
SPEC	152	252	2.6e-35	SMART
SPEC	258	358	4.93e-36	SMART
SPEC	364	464	1.08e-27	SMART
SPEC	470	570	9.01e-30	SMART
SPEC	576	675	3.52e-32	SMART
SPEC	681	781	2.15e-36	SMART
SPEC	787	887	2.45e-40	SMART
SPEC	893	1088	1.56e-24	SMART
SH3	970	1025	8.24e-18	SMART
SPEC	1094	1230	6.52e-27	SMART
SPEC	1236	1336	1.44e-37	SMART
SPEC	1342	1442	4.43e-29	SMART
SPEC	1448	1548	7.54e-32	SMART
SPEC	1554	1660	2.06e-24	SMART
SPEC	1666	1766	2.32e-32	SMART
SPEC	1772	1872	6.98e-36	SMART
SPEC	1878	1978	1.53e-32	SMART
SPEC	1984	2085	6.23e-24	SMART
SPEC	2099	2199	2.08e-11	SMART
SPEC	2213	2314	1.07e-4	SMART
EFh	2332	2360	5.78e-7	SMART
EFh	2375	2403	3.85e-3	SMART
efhand_Ca_insen	2407	2476	6.74e-32	SMART

Predicted Effect

probably benign
Transcript: ENSMUST00000113717
AA Change: T1998A

PolyPhen 2 Score 0.326 (Sensitivity: 0.90; Specificity: 0.89)

SMART Domains

Protein: ENSMUSP00000109346
Gene: ENSMUSG00000057738
AA Change: T1998A

Domain	Start	End	E-Value	Type
SPEC	47	146	2.1e-30	SMART
SPEC	152	252	2.6e-35	SMART
SPEC	258	358	4.93e-36	SMART
SPEC	364	464	1.08e-27	SMART
SPEC	470	570	9.01e-30	SMART
SPEC	576	675	3.52e-32	SMART
SPEC	681	781	2.15e-36	SMART
SPEC	787	887	2.45e-40	SMART
SPEC	893	1068	1.18e-24	SMART
SH3	970	1025	8.24e-18	SMART
SPEC	1074	1210	6.52e-27	SMART
SPEC	1216	1316	1.44e-37	SMART
SPEC	1322	1422	4.43e-29	SMART
SPEC	1428	1528	7.54e-32	SMART
SPEC	1534	1640	2.06e-24	SMART
SPEC	1646	1746	2.32e-32	SMART
SPEC	1752	1852	6.98e-36	SMART
SPEC	1858	1958	1.53e-32	SMART
SPEC	1964	2065	6.23e-24	SMART
SPEC	2079	2179	2.08e-11	SMART
SPEC	2193	2294	1.07e-4	SMART
EFh	2312	2340	5.78e-7	SMART
EFh	2355	2383	3.85e-3	SMART
efhand_Ca_insen	2387	2456	6.74e-32	SMART

Predicted Effect

probably benign
Transcript: ENSMUST00000113719
AA Change: T1998A

PolyPhen 2 Score 0.326 (Sensitivity: 0.90; Specificity: 0.89)

SMART Domains

Protein: ENSMUSP00000109348
Gene: ENSMUSG00000057738
AA Change: T1998A

Domain	Start	End	E-Value	Type
SPEC	47	146	2.1e-30	SMART
SPEC	152	252	2.6e-35	SMART
SPEC	258	358	4.93e-36	SMART
SPEC	364	464	1.08e-27	SMART
SPEC	470	570	9.01e-30	SMART
SPEC	576	675	3.52e-32	SMART
SPEC	681	781	2.15e-36	SMART
SPEC	787	887	2.45e-40	SMART
SPEC	893	1068	1.18e-24	SMART
SH3	970	1025	8.24e-18	SMART
SPEC	1074	1210	6.52e-27	SMART
SPEC	1216	1316	1.44e-37	SMART
SPEC	1322	1422	4.43e-29	SMART
SPEC	1428	1528	7.54e-32	SMART
SPEC	1534	1640	2.06e-24	SMART
SPEC	1646	1746	2.32e-32	SMART
SPEC	1752	1852	6.98e-36	SMART
SPEC	1858	1958	1.53e-32	SMART
SPEC	1964	2065	6.23e-24	SMART
SPEC	2079	2179	2.08e-11	SMART
SPEC	2193	2315	3.27e0	SMART
EFh	2333	2361	5.78e-7	SMART
EFh	2376	2404	3.85e-3	SMART
efhand_Ca_insen	2408	2477	6.74e-32	SMART

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000124494

Predicted Effect

unknown
Transcript: ENSMUST00000129241
AA Change: T2018A

SMART Domains

Protein: ENSMUSP00000121116
Gene: ENSMUSG00000057738
AA Change: T2018A

Domain	Start	End	E-Value	Type
Pfam:Spectrin	1	65	9.9e-10	PFAM
SPEC	78	178	2.08e-11	SMART
SPEC	192	314	3.27e0	SMART
EFh	332	360	5.78e-7	SMART
EFh	375	403	3.85e-3	SMART
efhand_Ca_insen	407	476	6.74e-32	SMART

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000152453

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000149846

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000201758

Coding Region Coverage

Validation Efficiency

MGI Phenotype

FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] Spectrins are a family of filamentous cytoskeletal proteins that function as essential scaffold proteins that stabilize the plasma membrane and organize intracellular organelles. Spectrins are composed of alpha and beta dimers that associate to form tetramers linked in a head-to-head arrangement. This gene encodes an alpha spectrin that is specifically expressed in nonerythrocytic cells. The encoded protein has been implicated in other cellular functions including DNA repair and cell cycle regulation. Mutations in this gene are the cause of early infantile epileptic encephalopathy-5. Alternate splicing results in multiple transcript variants.[provided by RefSeq, Sep 2010]
PHENOTYPE: Homozygous deletion of the exons encoding the CCC region are normal. Mice homozygous for a gene trap allele exhibit embryonic lethality and abnormal nervous system, heart and craniofacial morphology. [provided by MGI curators]

Allele List at MGI

All alleles(76) : Targeted(1) Gene trapped(75)

Other mutations in this stock

Total: 36 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
Aatk	A	G	11: 119,907,229 (GRCm39)	V101A	probably benign	Het
Btbd3	G	A	2: 138,121,681 (GRCm39)	M121I	probably damaging	Het
Caprin1	G	A	2: 103,609,850 (GRCm39)	R143C	probably damaging	Het
Cfap206	A	G	4: 34,716,445 (GRCm39)	I340T	possibly damaging	Het
Chmp6	A	G	11: 119,806,273 (GRCm39)	Y33C	probably damaging	Het
Clstn3	T	C	6: 124,415,327 (GRCm39)	D679G	possibly damaging	Het
Col24a1	G	A	3: 145,020,918 (GRCm39)	A430T	possibly damaging	Het
Commd6	A	T	14: 101,874,508 (GRCm39)	V28E	probably damaging	Het
Eno2	T	A	6: 124,740,848 (GRCm39)	Y236F	probably benign	Het
Erbb4	T	C	1: 68,369,397 (GRCm39)	S415G	probably benign	Het
Evpl	A	G	11: 116,118,753 (GRCm39)	I648T	possibly damaging	Het
Fat1	T	A	8: 45,478,278 (GRCm39)	D2441E	probably damaging	Het
Fat4	T	C	3: 39,012,599 (GRCm39)	V2298A	probably benign	Het
Fbxl8	C	A	8: 105,994,752 (GRCm39)	T88K	probably benign	Het
Ganc	A	G	2: 120,264,247 (GRCm39)	H400R	probably damaging	Het
Helb	G	A	10: 119,925,701 (GRCm39)	T892I	probably damaging	Het
Jaml	A	T	9: 45,005,107 (GRCm39)	K124N	possibly damaging	Het
Llgl2	G	T	11: 115,741,668 (GRCm39)	E599D	probably benign	Het
Nelfcd	G	A	2: 174,268,625 (GRCm39)	A559T	possibly damaging	Het
Nr2e1	G	A	10: 42,444,377 (GRCm39)	A244V	probably damaging	Het
Obscn	T	C	11: 58,890,950 (GRCm39)	K7194R	unknown	Het
Or2o1	A	G	11: 49,051,713 (GRCm39)		probably null	Het
Or5m8	A	G	2: 85,822,230 (GRCm39)	Q23R	possibly damaging	Het
Rasgrf2	A	T	13: 92,044,170 (GRCm39)	I961N	probably damaging	Het
Retreg3	T	C	11: 100,991,795 (GRCm39)	D46G	probably damaging	Het
Rtp2	A	C	16: 23,746,326 (GRCm39)	S122A	probably benign	Het
Sbf2	T	A	7: 110,062,139 (GRCm39)	D146V	probably damaging	Het
Slc39a13	A	G	2: 90,893,448 (GRCm39)	V324A	probably damaging	Het
Tnni3k	A	G	3: 154,498,404 (GRCm39)		probably benign	Het
Tnpo1	C	T	13: 99,000,348 (GRCm39)	E340K	probably damaging	Het
Trpm2	G	A	10: 77,801,906 (GRCm39)		probably benign	Het
Ttn	A	G	2: 76,539,276 (GRCm39)	L34570P	possibly damaging	Het
Vmn2r100	T	C	17: 19,752,186 (GRCm39)	V806A	probably damaging	Het
Wdr70	A	G	15: 8,065,352 (GRCm39)	S237P	possibly damaging	Het
Wnk1	T	C	6: 119,930,856 (GRCm39)	N896S	probably benign	Het
Zan	T	A	5: 137,422,859 (GRCm39)	D2718V	unknown	Het

Other mutations in Sptan1

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL00668:Sptan1	APN	2	29,883,968 (GRCm39)	critical splice donor site	probably null
IGL00932:Sptan1	APN	2	29,905,622 (GRCm39)	missense	probably damaging	1.00
IGL00945:Sptan1	APN	2	29,890,083 (GRCm39)	splice site	probably benign
IGL01070:Sptan1	APN	2	29,904,185 (GRCm39)	critical splice donor site	probably null
IGL01625:Sptan1	APN	2	29,916,126 (GRCm39)	missense	probably damaging	1.00
IGL01657:Sptan1	APN	2	29,908,491 (GRCm39)	missense	probably benign	0.12
IGL01795:Sptan1	APN	2	29,908,501 (GRCm39)	missense	probably benign	0.07
IGL01982:Sptan1	APN	2	29,909,980 (GRCm39)	missense	probably damaging	1.00
IGL02040:Sptan1	APN	2	29,903,725 (GRCm39)	missense	probably benign	0.43
IGL02158:Sptan1	APN	2	29,920,336 (GRCm39)	missense	probably damaging	0.97
IGL02370:Sptan1	APN	2	29,920,752 (GRCm39)	missense	probably damaging	0.99
IGL02507:Sptan1	APN	2	29,906,067 (GRCm39)	missense	probably damaging	1.00
IGL02552:Sptan1	APN	2	29,908,486 (GRCm39)	missense	probably damaging	0.99
IGL02690:Sptan1	APN	2	29,888,195 (GRCm39)	missense	possibly damaging	0.78
IGL02715:Sptan1	APN	2	29,868,588 (GRCm39)	missense	probably benign	0.03
IGL02725:Sptan1	APN	2	29,886,055 (GRCm39)	missense	probably damaging	0.99
IGL03033:Sptan1	APN	2	29,881,045 (GRCm39)	missense	probably damaging	1.00
IGL03304:Sptan1	APN	2	29,876,505 (GRCm39)	missense	probably damaging	1.00
R0058:Sptan1	UTSW	2	29,883,708 (GRCm39)	splice site	probably null
R0058:Sptan1	UTSW	2	29,883,708 (GRCm39)	splice site	probably null
R0066:Sptan1	UTSW	2	29,893,679 (GRCm39)	splice site	probably benign
R0066:Sptan1	UTSW	2	29,893,679 (GRCm39)	splice site	probably benign
R0071:Sptan1	UTSW	2	29,893,354 (GRCm39)	nonsense	probably null
R0071:Sptan1	UTSW	2	29,893,354 (GRCm39)	nonsense	probably null
R0094:Sptan1	UTSW	2	29,896,635 (GRCm39)	missense	probably benign	0.37
R0230:Sptan1	UTSW	2	29,900,704 (GRCm39)	splice site	probably benign
R0242:Sptan1	UTSW	2	29,908,413 (GRCm39)	missense	probably benign	0.00
R0242:Sptan1	UTSW	2	29,908,413 (GRCm39)	missense	probably benign	0.00
R0366:Sptan1	UTSW	2	29,882,764 (GRCm39)	splice site	probably null
R0368:Sptan1	UTSW	2	29,883,927 (GRCm39)	missense	probably benign	0.29
R0396:Sptan1	UTSW	2	29,881,045 (GRCm39)	missense	probably damaging	1.00
R0423:Sptan1	UTSW	2	29,918,684 (GRCm39)	missense	probably null
R0448:Sptan1	UTSW	2	29,916,822 (GRCm39)	missense	probably damaging	1.00
R0485:Sptan1	UTSW	2	29,903,860 (GRCm39)	splice site	probably benign
R0580:Sptan1	UTSW	2	29,897,587 (GRCm39)	missense	probably damaging	0.99
R0739:Sptan1	UTSW	2	29,903,530 (GRCm39)	missense	probably damaging	1.00
R0924:Sptan1	UTSW	2	29,906,040 (GRCm39)	missense	probably damaging	0.98
R0930:Sptan1	UTSW	2	29,906,040 (GRCm39)	missense	probably damaging	0.98
R0961:Sptan1	UTSW	2	29,870,075 (GRCm39)	splice site	probably null
R1352:Sptan1	UTSW	2	29,911,199 (GRCm39)	splice site	probably benign
R1456:Sptan1	UTSW	2	29,870,215 (GRCm39)	critical splice donor site	probably null
R1537:Sptan1	UTSW	2	29,916,034 (GRCm39)	missense	possibly damaging	0.95
R1542:Sptan1	UTSW	2	29,917,139 (GRCm39)	missense	probably damaging	1.00
R1612:Sptan1	UTSW	2	29,893,348 (GRCm39)	missense	probably damaging	1.00
R1623:Sptan1	UTSW	2	29,876,432 (GRCm39)	missense	probably damaging	0.96
R1834:Sptan1	UTSW	2	29,882,013 (GRCm39)	splice site	probably benign
R1879:Sptan1	UTSW	2	29,885,540 (GRCm39)	missense	probably damaging	1.00
R1893:Sptan1	UTSW	2	29,910,472 (GRCm39)	missense	probably damaging	0.98
R1914:Sptan1	UTSW	2	29,901,048 (GRCm39)	missense	probably benign	0.00
R1915:Sptan1	UTSW	2	29,901,048 (GRCm39)	missense	probably benign	0.00
R2022:Sptan1	UTSW	2	29,897,573 (GRCm39)	missense	probably damaging	0.96
R2050:Sptan1	UTSW	2	29,892,250 (GRCm39)	missense	probably benign
R2103:Sptan1	UTSW	2	29,920,483 (GRCm39)	missense	probably damaging	1.00
R2162:Sptan1	UTSW	2	29,908,588 (GRCm39)	splice site	probably benign
R2931:Sptan1	UTSW	2	29,908,500 (GRCm39)	missense	probably benign
R3726:Sptan1	UTSW	2	29,908,431 (GRCm39)	missense	possibly damaging	0.59
R4170:Sptan1	UTSW	2	29,920,037 (GRCm39)	missense	possibly damaging	0.93
R4235:Sptan1	UTSW	2	29,916,600 (GRCm39)	missense	probably damaging	1.00
R4378:Sptan1	UTSW	2	29,915,581 (GRCm39)	missense	probably damaging	1.00
R4424:Sptan1	UTSW	2	29,919,721 (GRCm39)	intron	probably benign
R4718:Sptan1	UTSW	2	29,921,074 (GRCm39)	missense	probably damaging	1.00
R4777:Sptan1	UTSW	2	29,886,447 (GRCm39)	missense	probably damaging	0.98
R4849:Sptan1	UTSW	2	29,901,054 (GRCm39)	missense	probably damaging	1.00
R5158:Sptan1	UTSW	2	29,868,455 (GRCm39)	missense	probably damaging	1.00
R5180:Sptan1	UTSW	2	29,883,736 (GRCm39)	intron	probably benign
R5181:Sptan1	UTSW	2	29,883,736 (GRCm39)	intron	probably benign
R5383:Sptan1	UTSW	2	29,901,340 (GRCm39)	missense	probably damaging	1.00
R5573:Sptan1	UTSW	2	29,876,504 (GRCm39)	nonsense	probably null
R5592:Sptan1	UTSW	2	29,876,731 (GRCm39)	intron	probably benign
R5639:Sptan1	UTSW	2	29,881,005 (GRCm39)	nonsense	probably null
R5801:Sptan1	UTSW	2	29,920,613 (GRCm39)	splice site	probably null
R5947:Sptan1	UTSW	2	29,884,379 (GRCm39)	critical splice donor site	probably null
R6056:Sptan1	UTSW	2	29,886,794 (GRCm39)	missense	probably benign	0.36
R6090:Sptan1	UTSW	2	29,883,899 (GRCm39)	missense	probably damaging	1.00
R6146:Sptan1	UTSW	2	29,894,535 (GRCm39)	missense	probably benign	0.01
R6254:Sptan1	UTSW	2	29,897,561 (GRCm39)	missense	possibly damaging	0.93
R6366:Sptan1	UTSW	2	29,910,467 (GRCm39)	missense	possibly damaging	0.47
R6378:Sptan1	UTSW	2	29,908,527 (GRCm39)	missense	probably damaging	1.00
R6521:Sptan1	UTSW	2	29,910,467 (GRCm39)	missense	possibly damaging	0.47
R6877:Sptan1	UTSW	2	29,920,985 (GRCm39)	missense	probably damaging	0.99
R7173:Sptan1	UTSW	2	29,873,221 (GRCm39)	missense	probably benign	0.02
R7248:Sptan1	UTSW	2	29,892,311 (GRCm39)	missense	probably benign	0.10
R7282:Sptan1	UTSW	2	29,876,941 (GRCm39)	missense	probably damaging	1.00
R7527:Sptan1	UTSW	2	29,870,209 (GRCm39)	missense	probably damaging	1.00
R7585:Sptan1	UTSW	2	29,890,068 (GRCm39)	missense	probably benign	0.06
R7779:Sptan1	UTSW	2	29,911,319 (GRCm39)	missense	probably damaging	1.00
R8051:Sptan1	UTSW	2	29,920,171 (GRCm39)	missense	probably damaging	1.00
R8055:Sptan1	UTSW	2	29,884,351 (GRCm39)	missense	probably benign	0.22
R8103:Sptan1	UTSW	2	29,910,055 (GRCm39)	missense	probably damaging	1.00
R8283:Sptan1	UTSW	2	29,870,212 (GRCm39)	missense	probably damaging	1.00
R8507:Sptan1	UTSW	2	29,916,596 (GRCm39)	missense	probably damaging	1.00
R8963:Sptan1	UTSW	2	29,873,744 (GRCm39)	missense	possibly damaging	0.92
R9126:Sptan1	UTSW	2	29,920,597 (GRCm39)	missense	probably damaging	0.99
R9206:Sptan1	UTSW	2	29,920,724 (GRCm39)	missense	possibly damaging	0.90
R9273:Sptan1	UTSW	2	29,880,977 (GRCm39)	missense	possibly damaging	0.88
X0028:Sptan1	UTSW	2	29,910,042 (GRCm39)	missense	probably damaging	1.00

Posted On

2016-08-02