Mutagenetix > Incidental Mutation

Incidental Mutation 'R7635:Cdyl'

589914

Institutional Source

Beutler Lab

Gene Symbol

Cdyl

Ensembl Gene

ENSMUSG00000059288

Gene Name

chromodomain protein, Y chromosome-like

Synonyms

MMRRC Submission

045694-MU

Accession Numbers

Essential gene?

Possibly essential (E-score: 0.577) question?

Stock #

R7635 (G1)

Quality Score

225.009

Status

Not validated

Chromosome

Chromosomal Location

35843816-36058046 bp(+) (GRCm39)

Type of Mutation

missense

DNA Base Change (assembly)

T to C at 36055634 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Valine to Alanine at position 518 (V518A)

Ref Sequence

ENSEMBL: ENSMUSP00000074707 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000075220] [ENSMUST00000163595]

AlphaFold

Q9WTK2

Predicted Effect

probably damaging
Transcript: ENSMUST00000075220
AA Change: V518A

PolyPhen 2 Score 0.999 (Sensitivity: 0.14; Specificity: 0.99)

SMART Domains

Protein: ENSMUSP00000074707
Gene: ENSMUSG00000059288
AA Change: V518A

Domain	Start	End	E-Value	Type
CHROMO	55	109	2.06e-18	SMART
low complexity region	116	129	N/A	INTRINSIC
Pfam:ECH_1	342	593	1.8e-35	PFAM
Pfam:ECH_2	348	592	6e-17	PFAM

Predicted Effect

probably damaging
Transcript: ENSMUST00000163595
AA Change: V469A

PolyPhen 2 Score 0.994 (Sensitivity: 0.69; Specificity: 0.97)

SMART Domains

Protein: ENSMUSP00000131784
Gene: ENSMUSG00000059288
AA Change: V469A

Domain	Start	End	E-Value	Type
CHROMO	6	60	1.58e-19	SMART
low complexity region	67	80	N/A	INTRINSIC
Pfam:ECH	291	539	4e-38	PFAM

Coding Region Coverage

1x: 100.0%
3x: 99.9%
10x: 99.7%
20x: 99.1%

Validation Efficiency

MGI Phenotype

FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] Chromodomain Y is a primate-specific Y-chromosomal gene family expressed exclusively in the testis and implicated in infertility. Although the Y-linked genes are testis-specific, this autosomal gene is ubiquitously expressed. The Y-linked genes arose by retrotransposition of an mRNA from this gene, followed by amplification of the retroposed gene. Proteins encoded by this gene superfamily possess a chromodomain, a motif implicated in chromatin binding and gene suppression, and a catalytic domain believed to be involved in histone acetylation. Multiple proteins are encoded by transcript variants of this gene. [provided by RefSeq, Jul 2008]
PHENOTYPE: Conditional homozygous knockout in the cerebral cortex affects neuronal migration and results in increased susceptibility to pharmacologically induced seizures. [provided by MGI curators]

Allele List at MGI

Other mutations in this stock

Total: 93 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
1700102P08Rik	A	C	9: 108,274,605 (GRCm39)	D236A	probably damaging	Het
Adamts7	C	T	9: 90,077,298 (GRCm39)	P1322S	probably damaging	Het
AI661453	A	T	17: 47,778,676 (GRCm39)	T801S	unknown	Het
Alpk1	A	G	3: 127,489,310 (GRCm39)	V123A	probably benign	Het
Ap2b1	T	C	11: 83,280,554 (GRCm39)	V827A	probably benign	Het
Aqp5	T	A	15: 99,492,059 (GRCm39)	I219N	probably benign	Het
Astn1	G	A	1: 158,495,105 (GRCm39)	W1051*	probably null	Het
Atp8b1	T	C	18: 64,706,376 (GRCm39)	D211G	possibly damaging	Het
BC028528	CTCACTGGTTCTGTGGTCACTGGTTCTGTGGTCACTGGTTCTGTGGTCACTGGTT	CTCACTGGTTCTGTGGTCACTGGTTCTGTGGTCACTGGTTCTGTGGTCACTGGTTCTGTGGTCACTGGTT	3: 95,795,448 (GRCm39)		probably benign	Het
Bsn	A	G	9: 107,988,189 (GRCm39)	V2521A	unknown	Het
Car7	T	C	8: 105,275,069 (GRCm39)	V169A	probably damaging	Het
Catip	T	A	1: 74,408,121 (GRCm39)	D484E	unknown	Het
Ccdc18	T	C	5: 108,376,915 (GRCm39)		probably null	Het
Cep350	A	T	1: 155,754,767 (GRCm39)	C1949*	probably null	Het
Cinp	A	G	12: 110,850,447 (GRCm39)	V18A	possibly damaging	Het
Clec14a	A	G	12: 58,315,314 (GRCm39)	C103R	probably damaging	Het
Cplane1	A	G	15: 8,256,404 (GRCm39)	I1955V	probably benign	Het
Dnah8	G	C	17: 31,004,081 (GRCm39)	E3655Q	probably damaging	Het
Dnajc11	T	C	4: 152,053,068 (GRCm39)	I164T	probably damaging	Het
Dnajc13	A	T	9: 104,039,566 (GRCm39)	M2101K	probably benign	Het
Ephb4	A	G	5: 137,370,365 (GRCm39)	D864G	probably damaging	Het
Fads2b	T	A	2: 85,330,581 (GRCm39)	H242L	probably benign	Het
Fkbp5	T	C	17: 28,647,335 (GRCm39)	T167A	probably benign	Het
Foxf2	C	A	13: 31,810,087 (GRCm39)	P9T	unknown	Het
Frmpd2	C	A	14: 33,222,920 (GRCm39)	H105N	possibly damaging	Het
Gal3st3	C	A	19: 5,357,434 (GRCm39)	R270S	probably damaging	Het
Galnt13	A	G	2: 54,747,829 (GRCm39)	I237V	probably damaging	Het
Gata5	G	T	2: 179,975,790 (GRCm39)	Q125K	possibly damaging	Het
Gm10036	T	A	18: 15,966,346 (GRCm39)	F166I	possibly damaging	Het
Gon4l	A	G	3: 88,802,413 (GRCm39)	N1008S	probably benign	Het
Got1l1	G	A	8: 27,687,962 (GRCm39)	L356F	probably damaging	Het
Gse1	A	G	8: 121,299,634 (GRCm39)	E888G	unknown	Het
Hmx1	C	A	5: 35,549,583 (GRCm39)	P292Q	possibly damaging	Het
Igkv7-33	A	T	6: 70,036,138 (GRCm39)	S16T	probably benign	Het
Itga2b	C	T	11: 102,352,582 (GRCm39)	G424D	probably damaging	Het
Itga6	A	T	2: 71,673,577 (GRCm39)	K870N	probably benign	Het
Lama4	A	T	10: 38,968,184 (GRCm39)	Q1442L	probably benign	Het
Lamc1	C	T	1: 153,124,806 (GRCm39)	R655H	probably damaging	Het
Lclat1	C	T	17: 73,468,931 (GRCm39)	S37L	probably benign	Het
Lrp1b	A	G	2: 41,013,609 (GRCm39)		probably null	Het
Map3k20	T	C	2: 72,232,348 (GRCm39)	S335P	probably benign	Het
Micu3	A	G	8: 40,819,275 (GRCm39)	D318G	possibly damaging	Het
Mmp16	T	C	4: 18,054,382 (GRCm39)	I296T	probably benign	Het
Mmp20	A	T	9: 7,639,335 (GRCm39)	I168L	probably benign	Het
Mpp3	T	C	11: 101,916,209 (GRCm39)	K48E	probably damaging	Het
Muc5ac	A	T	7: 141,359,490 (GRCm39)	T1317S	possibly damaging	Het
Muc5ac	A	T	7: 141,359,413 (GRCm39)	D1291V	probably damaging	Het
Myl10	A	T	5: 136,729,718 (GRCm39)	M119L	probably benign	Het
Myo5b	T	A	18: 74,713,467 (GRCm39)	V104E	probably damaging	Het
Nek10	G	A	14: 14,850,932 (GRCm38)	V326M	probably benign	Het
Or11l3	T	A	11: 58,515,990 (GRCm39)	E107D	unknown	Het
Or6c2	A	T	10: 129,362,551 (GRCm39)	M152L	probably benign	Het
Or6z1	G	A	7: 6,504,581 (GRCm39)	L221F	probably benign	Het
Pcnx1	A	G	12: 81,965,899 (GRCm39)	T161A		Het
Peg10	T	C	6: 4,754,938 (GRCm39)	S240P	probably damaging	Het
Pex6	G	A	17: 47,034,943 (GRCm39)	V822M	probably damaging	Het
Pla2r1	T	A	2: 60,365,106 (GRCm39)	T155S	probably benign	Het
Pld5	A	T	1: 175,821,416 (GRCm39)		probably null	Het
Plxna4	A	G	6: 32,473,676 (GRCm39)	V447A	probably damaging	Het
Pou2af1	T	C	9: 51,144,283 (GRCm39)	S66P	probably benign	Het
Pramel26	T	C	4: 143,536,987 (GRCm39)	E448G	probably damaging	Het
Prl2c2	T	C	13: 13,171,928 (GRCm39)	D147G	probably damaging	Het
Prune1	A	G	3: 95,162,596 (GRCm39)	L359P	probably damaging	Het
Rab4b	A	T	7: 26,875,642 (GRCm39)	V13E	probably damaging	Het
Rbbp6	T	G	7: 122,575,231 (GRCm39)	V80G	possibly damaging	Het
Reep5	C	T	18: 34,482,853 (GRCm39)	G119S	possibly damaging	Het
Rem1	G	C	2: 152,476,585 (GRCm39)	R281P	probably damaging	Het
Rnf215	C	T	11: 4,089,989 (GRCm39)	R309C	probably damaging	Het
Scn4a	C	A	11: 106,215,458 (GRCm39)	V1173F	probably damaging	Het
Serpine3	A	T	14: 62,910,464 (GRCm39)	I186F	possibly damaging	Het
Slc7a1	A	G	5: 148,289,046 (GRCm39)	V67A	probably damaging	Het
Smco2	A	T	6: 146,761,507 (GRCm39)	E142V	possibly damaging	Het
Spata25	G	A	2: 164,669,889 (GRCm39)	P41S	probably benign	Het
Specc1l	A	G	10: 75,112,638 (GRCm39)	D955G	probably damaging	Het
Spns3	C	T	11: 72,429,860 (GRCm39)		probably null	Het
Sptbn2	C	T	19: 4,794,235 (GRCm39)	R1480C	probably damaging	Het
Taf1a	T	C	1: 183,189,253 (GRCm39)		probably null	Het
Tas2r107	G	T	6: 131,636,563 (GRCm39)	T162K	possibly damaging	Het
Tcea1	T	C	1: 4,959,774 (GRCm39)	S139P	probably benign	Het
Tecta	C	T	9: 42,242,283 (GRCm39)	V2102I	probably benign	Het
Tmem131	A	T	1: 36,911,629 (GRCm39)	I106K	probably damaging	Het
Tpbpb	A	G	13: 61,049,925 (GRCm39)	V68A	probably benign	Het
Ttc27	A	T	17: 75,025,710 (GRCm39)	N61I	probably benign	Het
Ttn	T	C	2: 76,580,021 (GRCm39)	N23624S	probably damaging	Het
Tut7	T	C	13: 59,947,904 (GRCm39)	K806E	probably benign	Het
Usp2	T	C	9: 43,978,519 (GRCm39)		probably null	Het
Vmn1r10	A	G	6: 57,091,026 (GRCm39)	H206R	probably benign	Het
Vmn1r234	T	C	17: 21,449,479 (GRCm39)	I131T	probably damaging	Het
Vwf	G	T	6: 125,659,697 (GRCm39)	R2632L		Het
Wdr36	T	C	18: 32,983,578 (GRCm39)	L443P	probably benign	Het
Zfp143	T	C	7: 109,688,025 (GRCm39)	V489A	probably benign	Het
Zfp383	G	A	7: 29,614,696 (GRCm39)	R317Q	probably damaging	Het
Zswim8	A	G	14: 20,766,368 (GRCm39)	T839A	probably damaging	Het

Other mutations in Cdyl

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL00981:Cdyl	APN	13	36,000,096 (GRCm39)	missense	probably damaging	0.98
IGL01547:Cdyl	APN	13	35,974,145 (GRCm39)	missense	possibly damaging	0.90
IGL01911:Cdyl	APN	13	36,047,226 (GRCm39)	missense	probably damaging	0.97
IGL02584:Cdyl	APN	13	35,867,769 (GRCm39)	missense	probably benign
IGL02754:Cdyl	APN	13	35,867,725 (GRCm39)	splice site	probably benign
R1630:Cdyl	UTSW	13	35,867,786 (GRCm39)	missense	possibly damaging	0.66
R1678:Cdyl	UTSW	13	36,040,872 (GRCm39)	missense	probably damaging	0.99
R1802:Cdyl	UTSW	13	36,056,619 (GRCm39)	nonsense	probably null
R4435:Cdyl	UTSW	13	36,042,233 (GRCm39)	critical splice donor site	probably null
R5841:Cdyl	UTSW	13	36,056,544 (GRCm39)	missense	probably damaging	1.00
R5860:Cdyl	UTSW	13	36,042,066 (GRCm39)	missense	possibly damaging	0.73
R6430:Cdyl	UTSW	13	36,055,589 (GRCm39)	missense	possibly damaging	0.74
R7127:Cdyl	UTSW	13	36,040,651 (GRCm39)	missense	probably benign	0.01
R7296:Cdyl	UTSW	13	36,047,378 (GRCm39)	missense	probably damaging	1.00
R7369:Cdyl	UTSW	13	35,999,992 (GRCm39)	missense	probably damaging	1.00
R7422:Cdyl	UTSW	13	36,042,177 (GRCm39)	missense	possibly damaging	0.90
R7756:Cdyl	UTSW	13	36,056,624 (GRCm39)	missense	probably damaging	1.00
R7758:Cdyl	UTSW	13	36,056,624 (GRCm39)	missense	probably damaging	1.00
R7764:Cdyl	UTSW	13	36,000,126 (GRCm39)	missense	possibly damaging	0.92
R8221:Cdyl	UTSW	13	36,000,147 (GRCm39)	missense	probably benign	0.00
R8820:Cdyl	UTSW	13	36,042,174 (GRCm39)	missense	probably damaging	1.00
R9277:Cdyl	UTSW	13	36,042,222 (GRCm39)	missense	probably benign
R9550:Cdyl	UTSW	13	36,000,147 (GRCm39)	missense	probably benign	0.00
Z1176:Cdyl	UTSW	13	35,999,949 (GRCm39)	missense	probably damaging	1.00
Z1177:Cdyl	UTSW	13	36,000,053 (GRCm39)	missense	probably benign	0.21

Predicted Primers

PCR Primer
(F):5'- CCTCAGCTTGTGTCTCTGAG -3'
(R):5'- CCAAAGGACTTTGCAGCCAG -3'

Sequencing Primer
(F):5'- CTCAGCTTGTGTCTCTGAGGATTG -3'
(R):5'- CCAGTAAATGGTTAGCACTGGTG -3'

Posted On

2019-10-24