Mutagenetix > Incidental Mutation

Incidental Mutation 'R2421:Wdhd1'

249315

Institutional Source

Beutler Lab

Gene Symbol

Wdhd1

Ensembl Gene

ENSMUSG00000037572

Gene Name

WD repeat and HMG-box DNA binding protein 1

Synonyms

AND-1, D630024B06Rik

MMRRC Submission

040383-MU

Accession Numbers

Essential gene?

Essential (E-score: 1.000) question?

Stock #

R2421 (G1)

Quality Score

225

Status

Validated

Chromosome

Chromosomal Location

47240944-47276857 bp(-) (GRCm38)

Type of Mutation

missense

DNA Base Change (assembly)

G to A at 47258584 bp (GRCm38)

Zygosity

Heterozygous

Amino Acid Change

Histidine to Tyrosine at position 608 (H608Y)

Ref Sequence

ENSEMBL: ENSMUSP00000107420 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000111790] [ENSMUST00000111791] [ENSMUST00000111792] [ENSMUST00000187531] [ENSMUST00000227041]

AlphaFold

no structure available at present

Predicted Effect

probably benign
Transcript: ENSMUST00000111790
AA Change: H608Y

PolyPhen 2 Score 0.005 (Sensitivity: 0.97; Specificity: 0.74)

SMART Domains

Protein: ENSMUSP00000107420
Gene: ENSMUSG00000037572
AA Change: H608Y

Domain	Start	End	E-Value	Type
WD40	4	41	8.62e-4	SMART
WD40	83	122	8.91e-1	SMART
WD40	125	164	1.67e-10	SMART
WD40	217	258	6.19e-1	SMART
WD40	261	301	5.11e1	SMART
low complexity region	353	363	N/A	INTRINSIC
Pfam:DUF3639	525	551	2.4e-13	PFAM

Predicted Effect

probably benign
Transcript: ENSMUST00000111791
AA Change: H608Y

PolyPhen 2 Score 0.002 (Sensitivity: 0.99; Specificity: 0.30)

SMART Domains

Protein: ENSMUSP00000107421
Gene: ENSMUSG00000037572
AA Change: H608Y

Domain	Start	End	E-Value	Type
WD40	4	41	8.62e-4	SMART
WD40	83	122	8.91e-1	SMART
WD40	125	164	1.67e-10	SMART
WD40	217	258	6.19e-1	SMART
WD40	261	301	5.11e1	SMART
low complexity region	353	363	N/A	INTRINSIC
Pfam:Mcl1_mid	424	708	1.6e-103	PFAM
coiled coil region	802	834	N/A	INTRINSIC
HMG	1003	1073	2.64e-12	SMART

Predicted Effect

probably benign
Transcript: ENSMUST00000111792
AA Change: H571Y

PolyPhen 2 Score 0.003 (Sensitivity: 0.98; Specificity: 0.44)

SMART Domains

Protein: ENSMUSP00000107422
Gene: ENSMUSG00000037572
AA Change: H571Y

Domain	Start	End	E-Value	Type
WD40	4	41	8.62e-4	SMART
WD40	83	122	8.91e-1	SMART
WD40	125	164	1.67e-10	SMART
WD40	217	258	6.19e-1	SMART
WD40	261	301	5.11e1	SMART
low complexity region	316	326	N/A	INTRINSIC
Pfam:DUF3639	488	514	7.1e-13	PFAM
coiled coil region	765	797	N/A	INTRINSIC
HMG	966	1036	2.64e-12	SMART

Predicted Effect

probably benign
Transcript: ENSMUST00000187531
AA Change: H608Y

PolyPhen 2 Score 0.002 (Sensitivity: 0.99; Specificity: 0.30)

SMART Domains

Protein: ENSMUSP00000141182
Gene: ENSMUSG00000037572
AA Change: H608Y

Domain	Start	End	E-Value	Type
WD40	4	41	8.62e-4	SMART
WD40	83	122	8.91e-1	SMART
WD40	125	164	1.67e-10	SMART
WD40	217	258	6.19e-1	SMART
WD40	261	301	5.11e1	SMART
low complexity region	353	363	N/A	INTRINSIC
Pfam:DUF3639	525	551	3e-13	PFAM
coiled coil region	802	834	N/A	INTRINSIC
HMG	1003	1073	2.64e-12	SMART

Predicted Effect

probably benign
Transcript: ENSMUST00000227041

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000228742

Meta Mutation Damage Score

0.0888

Coding Region Coverage

1x: 99.1%
3x: 98.5%
10x: 97.0%
20x: 94.2%

Validation Efficiency

96% (81/84)

MGI Phenotype

FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] The protein encoded by this gene contains multiple N-terminal WD40 domains and a C-terminal high mobility group (HMG) box. WD40 domains are found in a variety of eukaryotic proteins and may function as adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly. HMG boxes are found in many eukaryotic proteins involved in chromatin assembly, transcription and replication. Alternative splicing results in two transcript variants encoding different isoforms. [provided by RefSeq, Jul 2008]

Allele List at MGI

Other mutations in this stock

Total: 84 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
Abraxas1	C	T	5: 100,812,174 (GRCm38)	R104H	possibly damaging	Het
Adamts3	A	G	5: 89,683,175 (GRCm38)	S1007P	probably damaging	Het
Adcy10	T	A	1: 165,558,597 (GRCm38)	L1118Q	probably damaging	Het
Adgre4	A	G	17: 55,778,872 (GRCm38)	E57G	probably benign	Het
Alpk2	T	C	18: 65,306,616 (GRCm38)	S1036G	probably benign	Het
Ank3	T	C	10: 69,982,204 (GRCm38)		probably benign	Het
Ankfy1	T	A	11: 72,755,896 (GRCm38)		probably benign	Het
Antxrl	A	G	14: 34,071,689 (GRCm38)		probably benign	Het
Apaf1	A	T	10: 91,020,723 (GRCm38)	V874D	probably damaging	Het
Arhgap39	T	A	15: 76,725,146 (GRCm38)	T1025S	probably damaging	Het
Arhgef12	A	T	9: 43,001,006 (GRCm38)	C519S	probably damaging	Het
Aspm	G	A	1: 139,488,487 (GRCm38)	V1512M	possibly damaging	Het
Atp13a3	T	C	16: 30,349,825 (GRCm38)	T449A	probably benign	Het
Atxn2	A	T	5: 121,802,079 (GRCm38)		probably null	Het
Birc6	T	A	17: 74,660,614 (GRCm38)	L301Q	probably damaging	Het
Camk2d	A	G	3: 126,780,415 (GRCm38)	D157G	probably damaging	Het
Ccdc122	T	C	14: 77,091,663 (GRCm38)		probably benign	Het
Ccdc137	G	A	11: 120,462,264 (GRCm38)		probably null	Het
Ccdc18	A	C	5: 108,228,588 (GRCm38)	E1298D	probably damaging	Het
Col4a3	G	A	1: 82,670,275 (GRCm38)		probably benign	Het
Coq10b	G	A	1: 55,052,977 (GRCm38)	A35T	probably benign	Het
Cracdl	C	A	1: 37,613,475 (GRCm38)	V1084L	probably benign	Het
Creb3l3	T	C	10: 81,091,818 (GRCm38)	I47V	probably benign	Het
Csgalnact1	A	T	8: 68,461,508 (GRCm38)	I15N	probably benign	Het
Dcp1b	A	G	6: 119,215,266 (GRCm38)	Q381R	probably benign	Het
Dnajc21	A	G	15: 10,461,935 (GRCm38)	S127P	probably benign	Het
Dnal1	C	T	12: 84,136,706 (GRCm38)	Q80*	probably null	Het
Dtd2	A	G	12: 51,999,855 (GRCm38)	V67A	probably benign	Het
Gart	A	G	16: 91,643,040 (GRCm38)		probably null	Het
Gm17421	T	A	12: 113,369,487 (GRCm38)		noncoding transcript	Het
Gm6327	T	C	16: 12,760,094 (GRCm38)		noncoding transcript	Het
Gm8674	T	C	13: 49,900,663 (GRCm38)		noncoding transcript	Het
Gpr107	G	A	2: 31,185,529 (GRCm38)	G351S	probably damaging	Het
H2-M10.5	A	G	17: 36,774,999 (GRCm38)	I308V	probably benign	Het
Krt13	A	T	11: 100,120,051 (GRCm38)	L159Q	probably benign	Het
Krt78	T	C	15: 101,947,264 (GRCm38)	E704G	probably damaging	Het
Lama1	A	T	17: 67,750,553 (GRCm38)	M541L	probably benign	Het
Lenep	G	A	3: 89,402,574 (GRCm38)		probably null	Het
Lrp1b	T	C	2: 40,882,133 (GRCm38)		probably benign	Het
Ly6g6e	G	A	17: 35,078,146 (GRCm38)	R121Q	probably benign	Het
Lyn	C	T	4: 3,748,787 (GRCm38)	A255V	possibly damaging	Het
Mdn1	T	A	4: 32,723,621 (GRCm38)	I2519K	probably damaging	Het
Mmaa	T	A	8: 79,281,432 (GRCm38)	R59W	probably damaging	Het
Ms4a4b	A	G	19: 11,454,697 (GRCm38)	I61V	possibly damaging	Het
Ndufaf1	T	C	2: 119,655,737 (GRCm38)	E298G	probably damaging	Het
Olfr175-ps1	T	C	16: 58,824,346 (GRCm38)	D121G	probably damaging	Het
Or10d5	A	G	9: 39,950,528 (GRCm38)	L81P	possibly damaging	Het
Or13a1	T	A	6: 116,493,713 (GRCm38)	C35S	probably benign	Het
Or4c114	T	C	2: 89,074,992 (GRCm38)	Y33C	possibly damaging	Het
Or5k15	T	C	16: 58,889,965 (GRCm38)	E85G	probably benign	Het
Pef1	C	A	4: 130,127,317 (GRCm38)	C221*	probably null	Het
Plekhg1	G	A	10: 3,958,048 (GRCm38)	M988I	probably benign	Het
Pnliprp1	T	A	19: 58,744,085 (GRCm38)	I460N	probably benign	Het
Ppfia4	T	C	1: 134,327,400 (GRCm38)	N239S	probably benign	Het
Ppp4r3a	A	G	12: 101,042,653 (GRCm38)		probably benign	Het
Prlr	T	A	15: 10,319,257 (GRCm38)	W91R	probably damaging	Het
Psmd2	T	A	16: 20,660,106 (GRCm38)		probably null	Het
Ptprt	T	A	2: 162,278,040 (GRCm38)		probably benign	Het
Pttg1ip2	T	C	5: 5,455,912 (GRCm38)	Y123C	probably benign	Het
Rbm12b2	T	C	4: 12,095,127 (GRCm38)	F662S	possibly damaging	Het
Rgs6	C	A	12: 83,116,283 (GRCm38)	T421K	possibly damaging	Het
Ryr2	T	G	13: 11,591,237 (GRCm38)	Q4486H	probably damaging	Het
Scn7a	A	T	2: 66,726,302 (GRCm38)		probably benign	Het
Smc1a	A	G	X: 152,047,975 (GRCm38)		probably benign	Het
Synrg	A	G	11: 84,009,224 (GRCm38)	E674G	probably damaging	Het
Syt9	G	A	7: 107,436,781 (GRCm38)	R335K	probably benign	Het
Taar7a	T	C	10: 23,992,517 (GRCm38)	N322S	probably damaging	Het
Tfb2m	C	A	1: 179,533,666 (GRCm38)	W252C	possibly damaging	Het
Tmub2	T	A	11: 102,287,755 (GRCm38)	D161E	probably benign	Het
Ttc23l	G	A	15: 10,537,566 (GRCm38)	S206L	probably benign	Het
Tyw1	A	T	5: 130,269,260 (GRCm38)	H214L	probably damaging	Het
Tyw5	A	G	1: 57,396,748 (GRCm38)	I82T	possibly damaging	Het
Uba6	A	G	5: 86,132,616 (GRCm38)		probably null	Het
Unc13c	T	C	9: 73,931,547 (GRCm38)	Y674C	probably damaging	Het
Vangl2	T	C	1: 172,007,959 (GRCm38)	Y382C	probably damaging	Het
Vmn2r105	T	A	17: 20,227,835 (GRCm38)	R242S	probably benign	Het
Vmn2r12	A	G	5: 109,086,532 (GRCm38)	Y605H	probably benign	Het
Vps13a	T	G	19: 16,759,671 (GRCm38)	I101L	probably benign	Het
Washc4	T	A	10: 83,579,521 (GRCm38)	F792I	probably damaging	Het
Wdr48	T	A	9: 119,902,404 (GRCm38)	I56K	probably damaging	Het
Xpo4	T	C	14: 57,629,503 (GRCm38)	D194G	probably benign	Het
Zfp644	A	G	5: 106,637,244 (GRCm38)	M479T	possibly damaging	Het
Zfp821	T	A	8: 109,709,533 (GRCm38)		probably null	Het
Zswim8	A	G	14: 20,719,457 (GRCm38)	Y1237C	probably damaging	Het

Other mutations in Wdhd1

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL01335:Wdhd1	APN	14	47,250,782 (GRCm38)	missense	possibly damaging	0.87
IGL01789:Wdhd1	APN	14	47,274,817 (GRCm38)	missense	probably benign	0.10
IGL01981:Wdhd1	APN	14	47,261,450 (GRCm38)	missense	probably damaging	1.00
IGL02034:Wdhd1	APN	14	47,261,351 (GRCm38)	missense	probably benign	0.02
IGL02932:Wdhd1	APN	14	47,272,134 (GRCm38)	critical splice donor site	probably null
IGL02966:Wdhd1	APN	14	47,241,644 (GRCm38)	missense	possibly damaging	0.93
IGL03355:Wdhd1	APN	14	47,243,889 (GRCm38)	missense	possibly damaging	0.78
R0165:Wdhd1	UTSW	14	47,267,068 (GRCm38)	missense	probably benign	0.00
R0414:Wdhd1	UTSW	14	47,276,588 (GRCm38)	missense	probably benign
R0603:Wdhd1	UTSW	14	47,263,586 (GRCm38)	missense	probably damaging	1.00
R1503:Wdhd1	UTSW	14	47,247,400 (GRCm38)	missense	probably benign	0.00
R1539:Wdhd1	UTSW	14	47,245,050 (GRCm38)	missense	possibly damaging	0.63
R1541:Wdhd1	UTSW	14	47,268,192 (GRCm38)	nonsense	probably null
R1588:Wdhd1	UTSW	14	47,256,236 (GRCm38)	missense	probably damaging	1.00
R1686:Wdhd1	UTSW	14	47,256,215 (GRCm38)	missense	probably damaging	1.00
R1916:Wdhd1	UTSW	14	47,258,577 (GRCm38)	missense	possibly damaging	0.89
R1952:Wdhd1	UTSW	14	47,270,190 (GRCm38)	missense	probably damaging	1.00
R2320:Wdhd1	UTSW	14	47,274,028 (GRCm38)	missense	probably benign	0.06
R3731:Wdhd1	UTSW	14	47,247,892 (GRCm38)	missense	possibly damaging	0.89
R3818:Wdhd1	UTSW	14	47,243,801 (GRCm38)	critical splice donor site	probably null
R3836:Wdhd1	UTSW	14	47,245,054 (GRCm38)	missense	probably benign	0.01
R4789:Wdhd1	UTSW	14	47,268,692 (GRCm38)	missense	probably benign	0.01
R4963:Wdhd1	UTSW	14	47,268,689 (GRCm38)	missense	possibly damaging	0.66
R4994:Wdhd1	UTSW	14	47,268,654 (GRCm38)	critical splice donor site	probably null
R5225:Wdhd1	UTSW	14	47,250,816 (GRCm38)	missense	probably benign	0.01
R5347:Wdhd1	UTSW	14	47,268,724 (GRCm38)	nonsense	probably null
R5377:Wdhd1	UTSW	14	47,272,221 (GRCm38)	missense	probably benign	0.15
R6038:Wdhd1	UTSW	14	47,263,580 (GRCm38)	missense	possibly damaging	0.89
R6038:Wdhd1	UTSW	14	47,263,580 (GRCm38)	missense	possibly damaging	0.89
R6046:Wdhd1	UTSW	14	47,273,210 (GRCm38)	nonsense	probably null
R6156:Wdhd1	UTSW	14	47,268,196 (GRCm38)	missense	probably damaging	0.99
R6289:Wdhd1	UTSW	14	47,258,496 (GRCm38)	missense	possibly damaging	0.95
R6298:Wdhd1	UTSW	14	47,273,122 (GRCm38)	missense	possibly damaging	0.67
R6345:Wdhd1	UTSW	14	47,251,922 (GRCm38)	missense	probably damaging	0.99
R6405:Wdhd1	UTSW	14	47,243,867 (GRCm38)	missense	possibly damaging	0.91
R6500:Wdhd1	UTSW	14	47,250,760 (GRCm38)	splice site	probably null
R6564:Wdhd1	UTSW	14	47,248,042 (GRCm38)	missense	probably benign
R6897:Wdhd1	UTSW	14	47,248,130 (GRCm38)	missense	probably damaging	1.00
R7262:Wdhd1	UTSW	14	47,251,973 (GRCm38)	missense	probably benign	0.08
R7444:Wdhd1	UTSW	14	47,251,948 (GRCm38)	nonsense	probably null
R7496:Wdhd1	UTSW	14	47,274,024 (GRCm38)	missense	probably benign	0.39
R7503:Wdhd1	UTSW	14	47,250,791 (GRCm38)	missense	probably benign	0.25
R8317:Wdhd1	UTSW	14	47,263,537 (GRCm38)	missense	probably damaging	1.00
R8323:Wdhd1	UTSW	14	47,274,795 (GRCm38)	missense	possibly damaging	0.85
R8331:Wdhd1	UTSW	14	47,272,245 (GRCm38)	splice site	probably null
R8338:Wdhd1	UTSW	14	47,268,663 (GRCm38)	missense	probably benign
R8363:Wdhd1	UTSW	14	47,276,532 (GRCm38)	missense	probably damaging	1.00
R8944:Wdhd1	UTSW	14	47,267,013 (GRCm38)	missense	probably benign
R8946:Wdhd1	UTSW	14	47,245,295 (GRCm38)	missense	probably benign	0.01
R9045:Wdhd1	UTSW	14	47,273,952 (GRCm38)	missense	probably benign	0.01
R9428:Wdhd1	UTSW	14	47,251,970 (GRCm38)	nonsense	probably null
R9444:Wdhd1	UTSW	14	47,250,867 (GRCm38)	missense	possibly damaging	0.85
R9491:Wdhd1	UTSW	14	47,268,159 (GRCm38)	nonsense	probably null

Predicted Primers

PCR Primer
(F):5'- TGCCAAACAACTAAAGTTTTGATCC -3'
(R):5'- GAGAAACTCTGTCTCAAGATACACC -3'

Sequencing Primer
(F):5'- AGTGGAAATTTTAAATGTAGGG -3'
(R):5'- TGCCTGATACATGCATGC -3'

Posted On

2014-11-12