Mutagenetix > Incidental Mutation

Incidental Mutation 'RF002:Spata6'

602550

Institutional Source

Beutler Lab

Gene Symbol

Spata6

Ensembl Gene

ENSMUSG00000034401

Gene Name

spermatogenesis associated 6

Synonyms

KRP, 1700062C23Rik, Hash

Accession Numbers

Essential gene?

Non essential (E-score: 0.000) question?

Stock #

RF002 (G1)

Quality Score

225.009

Status

Not validated

Chromosome

Chromosomal Location

111577151-111686339 bp(+) (GRCm39)

Type of Mutation

missense

DNA Base Change (assembly)

T to A at 111685502 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Methionine to Lysine at position 469 (M469K)

Ref Sequence

ENSEMBL: ENSMUSP00000036964 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000038868] [ENSMUST00000084354]

AlphaFold

Q3U6K5

Predicted Effect

probably benign
Transcript: ENSMUST00000038868
AA Change: M469K

PolyPhen 2 Score 0.000 (Sensitivity: 1.00; Specificity: 0.00)

SMART Domains

Protein: ENSMUSP00000036964
Gene: ENSMUSG00000034401
AA Change: M469K

Domain	Start	End	E-Value	Type
Pfam:SPATA6	11	149	3.4e-56	PFAM
low complexity region	182	198	N/A	INTRINSIC
low complexity region	397	413	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000084354
AA Change: M453K

PolyPhen 2 Score 0.293 (Sensitivity: 0.91; Specificity: 0.89)

SMART Domains

Protein: ENSMUSP00000081383
Gene: ENSMUSG00000034401
AA Change: M453K

Domain	Start	End	E-Value	Type
Pfam:SPATA6	10	149	1.9e-57	PFAM
low complexity region	182	198	N/A	INTRINSIC
low complexity region	377	394	N/A	INTRINSIC

Coding Region Coverage

1x: 99.9%
3x: 99.7%
10x: 99.4%
20x: 98.7%

Validation Efficiency

MGI Phenotype

PHENOTYPE: Mice homozygous for a null allele exhibit abnormal formation of the sperm connecting piece during late spermiogenesis, leading to acephalic spermatozoa and male infertility. [provided by MGI curators]

Allele List at MGI

Other mutations in this stock

Total: 61 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
AI837181	CGG	CGGTGG	19: 5,475,262 (GRCm39)		probably benign	Het
AI837181	GGC	GGCTGC	19: 5,475,263 (GRCm39)		probably benign	Het
Angptl1	A	T	1: 156,684,794 (GRCm39)	Q321L	possibly damaging	Het
AY358078	T	TAGGATAATGC	14: 52,043,050 (GRCm39)		probably null	Het
Blm	CCTCCTCCTCCTCCTCCTCCTCCT	CCTCCTCCTCCTGCTCCTCCTCCTCCTCCTCCTCCT	7: 80,162,653 (GRCm39)		probably benign	Het
Blm	CTC	CTCATCCTCCTCATC	7: 80,162,675 (GRCm39)		probably benign	Het
Car13	T	C	3: 14,719,974 (GRCm39)	Y129H	probably damaging	Het
Cd109	TTATTTATTTAT	TTATTTATTTATGTATTTATTTAT	9: 78,619,805 (GRCm39)		probably benign	Het
Cd109	TATTTAT	TATTTATTTATTCATTTAT	9: 78,619,810 (GRCm39)		probably benign	Het
Cdh26	T	C	2: 178,108,424 (GRCm39)	C341R	probably damaging	Het
Chga	GCA	GCACCA	12: 102,527,680 (GRCm39)		probably benign	Het
Col11a1	A	T	3: 114,010,650 (GRCm39)	I1689L	unknown	Het
Dnah6	T	G	6: 73,078,872 (GRCm39)	S2364R	probably benign	Het
E4f1	CCG	CCGACG	17: 24,674,160 (GRCm39)		probably benign	Het
Fah	A	C	7: 84,238,836 (GRCm39)	N336K	probably damaging	Het
Fbxo11	A	T	17: 88,303,481 (GRCm39)	I664K		Het
Fcgbp	A	G	7: 27,789,180 (GRCm39)	D582G	probably benign	Het
Gabre	C	CCGGCTA	X: 71,313,663 (GRCm39)		probably null	Het
Garin5a	CCTGGGTCTGAGGGAGGA	CCTGGGTCTGAGGGAGGAAGGCTGGATCCTGGATAACTGGGTCTGAGGGAGGA	7: 44,149,944 (GRCm39)		probably null	Het
Gm1110	A	G	9: 26,831,936 (GRCm39)	Y72H	probably damaging	Het
Inpp5e	C	T	2: 26,298,389 (GRCm39)	A71T	possibly damaging	Het
Iqcm	C	T	8: 76,304,527 (GRCm39)	T96I	probably benign	Het
Lce1m	TGCCACCGCTGC	TGCCACCGCTGCCGCCACCGCTGC	3: 92,925,590 (GRCm39)		probably benign	Het
Lce1m	AC	ACCGCCGCTGCCCC	3: 92,925,606 (GRCm39)		probably benign	Het
Lrch1	TTGGTGGTGCTGGTGG	TTGGTGG	14: 75,185,014 (GRCm39)		probably benign	Het
Lyst	A	G	13: 13,808,948 (GRCm39)	D206G	probably benign	Het
Map4k5	A	T	12: 69,903,630 (GRCm39)	D58E	probably damaging	Het
Mapkapk2	A	G	1: 130,984,250 (GRCm39)	S251P	probably damaging	Het
Mcph1	CCTG	CCTGCTG	8: 18,702,545 (GRCm39)		probably benign	Het
Men1	T	C	19: 6,390,146 (GRCm39)	S600P	probably damaging	Het
Mllt1	C	T	17: 57,203,300 (GRCm39)	V394M	probably benign	Het
Mllt1	C	A	17: 57,203,301 (GRCm39)	M393I	possibly damaging	Het
Nacc1	T	C	8: 85,402,848 (GRCm39)	E315G	possibly damaging	Het
Nefh	GGGGACTTGGCCTC	GGGGACTTGGCCTCACCTAGGGACTTGGCCTC	11: 4,891,047 (GRCm39)		probably benign	Het
Nefh	GACTTGGCCTC	GACTTGGCCTCACCTGGGGACTTGGCCTC	11: 4,891,050 (GRCm39)		probably benign	Het
Nid2	TAACACCGCCA	TA	14: 19,801,434 (GRCm39)		probably benign	Het
Or5b122	T	A	19: 13,563,415 (GRCm39)	I206N	probably damaging	Het
Parp2	A	G	14: 51,054,843 (GRCm39)	E262G	probably damaging	Het
Pdik1l	TTT	TTTGTTTTTGTGTT	4: 134,006,686 (GRCm39)		probably null	Het
Pop1	G	A	15: 34,502,583 (GRCm39)	G90D	probably damaging	Het
Ppp3cc	T	C	14: 70,504,788 (GRCm39)	T73A	possibly damaging	Het
Prdm15	C	T	16: 97,600,829 (GRCm39)	D810N	probably damaging	Het
Prpf4b	T	A	13: 35,068,219 (GRCm39)	S349R	unknown	Het
Rassf6	TCCTGTAGAGCAATGGGGATTC	TCCTGTAGAGCAATGGGGATTCTGCCTCACTCATGGGCCTGTAGAGCAATGGGGATTC	5: 90,756,780 (GRCm39)		probably benign	Het
Rassf6	GTAGAGCAATGGGGATTC	GTAGAGCAATGGGGATTCTGCCTCACTCATGGTCCTTTAGAGCAATGGGGATTC	5: 90,756,784 (GRCm39)		probably null	Het
Sdk2	T	C	11: 113,776,078 (GRCm39)	E208G	probably benign	Het
Smurf2	G	T	11: 106,743,413 (GRCm39)	P211Q	probably benign	Het
Snx25	C	A	8: 46,569,218 (GRCm39)		probably null	Het
Spta1	G	T	1: 174,058,926 (GRCm39)	A1954S	possibly damaging	Het
Sry	CTGGTCGTGGAACTGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTGGTGGTGGTCATGGAACTGCTG	CTGGTCATGGAACTGCTG	Y: 2,662,564 (GRCm39)		probably benign	Het
Stard8	GAG	GAGTAG	X: 98,110,121 (GRCm39)		probably null	Het
Tfeb	AGC	AGCGGC	17: 48,097,027 (GRCm39)		probably benign	Het
Tlcd1	T	A	11: 78,071,020 (GRCm39)	L203Q	probably benign	Het
Tlr11	T	C	14: 50,598,682 (GRCm39)	F223L	possibly damaging	Het
Usp48	T	A	4: 137,333,106 (GRCm39)	V100D	probably damaging	Het
Vinac1	A	G	2: 128,880,714 (GRCm39)	F404S		Het
Vmn2r56	G	A	7: 12,428,757 (GRCm39)	T503I	probably benign	Het
Vps18	T	C	2: 119,127,871 (GRCm39)	L898P	probably damaging	Het
Zfp384	GCCCAGGCCCAGGCCCAGGCCCAG	GCCCAGGCCCAGTCCCAGGCCCAGGCCCAGGCCCAG	6: 125,013,434 (GRCm39)		probably benign	Het
Zfp706	T	A	15: 37,003,949 (GRCm39)	Y39F	probably benign	Het
Zhx3	T	A	2: 160,623,726 (GRCm39)	N147I	probably damaging	Het

Other mutations in Spata6

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL00944:Spata6	APN	4	111,663,125 (GRCm39)	splice site	probably benign
IGL02110:Spata6	APN	4	111,642,003 (GRCm39)	missense	possibly damaging	0.53
IGL03181:Spata6	APN	4	111,679,963 (GRCm39)	missense	probably benign	0.11
PIT4378001:Spata6	UTSW	4	111,603,378 (GRCm39)	missense	possibly damaging	0.71
R0043:Spata6	UTSW	4	111,638,002 (GRCm39)	missense	probably damaging	0.98
R1199:Spata6	UTSW	4	111,656,342 (GRCm39)	missense	possibly damaging	0.53
R1491:Spata6	UTSW	4	111,603,388 (GRCm39)	missense	probably damaging	0.99
R1548:Spata6	UTSW	4	111,636,203 (GRCm39)	missense	probably benign	0.18
R1582:Spata6	UTSW	4	111,637,994 (GRCm39)	missense	probably benign	0.00
R1582:Spata6	UTSW	4	111,637,992 (GRCm39)	nonsense	probably null
R4690:Spata6	UTSW	4	111,632,023 (GRCm39)	missense	probably damaging	1.00
R5123:Spata6	UTSW	4	111,625,992 (GRCm39)	missense	possibly damaging	0.71
R5360:Spata6	UTSW	4	111,680,026 (GRCm39)	missense	possibly damaging	0.96
R5373:Spata6	UTSW	4	111,680,031 (GRCm39)	critical splice donor site	probably null
R5396:Spata6	UTSW	4	111,656,315 (GRCm39)	missense	probably damaging	1.00
R5919:Spata6	UTSW	4	111,636,405 (GRCm39)	missense	probably damaging	0.96
R6017:Spata6	UTSW	4	111,632,024 (GRCm39)	missense	probably damaging	1.00
R6476:Spata6	UTSW	4	111,632,020 (GRCm39)	missense	probably damaging	1.00
R6573:Spata6	UTSW	4	111,636,476 (GRCm39)	missense	probably damaging	1.00
R6807:Spata6	UTSW	4	111,642,012 (GRCm39)	missense	probably benign	0.01
R7341:Spata6	UTSW	4	111,625,935 (GRCm39)	nonsense	probably null
R7406:Spata6	UTSW	4	111,638,017 (GRCm39)	missense	possibly damaging	0.70
R8116:Spata6	UTSW	4	111,685,517 (GRCm39)	missense	possibly damaging	0.96
R8745:Spata6	UTSW	4	111,636,476 (GRCm39)	missense	probably benign	0.18
R8965:Spata6	UTSW	4	111,680,009 (GRCm39)	nonsense	probably null
R9342:Spata6	UTSW	4	111,636,389 (GRCm39)	missense	possibly damaging	0.53
R9400:Spata6	UTSW	4	111,577,428 (GRCm39)	missense	probably benign	0.04
R9539:Spata6	UTSW	4	111,685,526 (GRCm39)	missense	possibly damaging	0.70
X0066:Spata6	UTSW	4	111,685,501 (GRCm39)	missense	probably benign	0.00

Predicted Primers

PCR Primer
(F):5'- GCCCCAACAGATTATCACGTG -3'
(R):5'- ACTCTGTTACTCAGTGAACATCTG -3'

Sequencing Primer
(F):5'- GTTCGAATTCACAGTAGTGCC -3'
(R):5'- GTGAACATCTGTTTTAAAGAAAGGCG -3'

Posted On

2019-12-04