Mutagenetix > Incidental Mutation

Incidental Mutation 'R5586:Pcdhb9'

438778

Institutional Source

Beutler Lab

Gene Symbol

Pcdhb9

Ensembl Gene

ENSMUSG00000051242

Gene Name

protocadherin beta 9

Synonyms

PcdhbI, Pcdhb4C

MMRRC Submission

043140-MU

Accession Numbers

Essential gene?

Probably non essential (E-score: 0.099) question?

Stock #

R5586 (G1)

Quality Score

225

Status

Validated

Chromosome

Chromosomal Location

37400855-37403909 bp(+) (GRCm38)

Type of Mutation

missense

DNA Base Change (assembly)

A to G at 37401114 bp (GRCm38)

Zygosity

Heterozygous

Amino Acid Change

Methionine to Valine at position 54 (M54V)

Ref Sequence

ENSEMBL: ENSMUSP00000058801 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000057228] [ENSMUST00000115661] [ENSMUST00000194544]

AlphaFold

E9Q5G2

Predicted Effect

probably benign
Transcript: ENSMUST00000057228
AA Change: M54V

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

SMART Domains

Protein: ENSMUSP00000058801
Gene: ENSMUSG00000051242
AA Change: M54V

Domain	Start	End	E-Value	Type
Pfam:Cadherin_2	65	147	2.3e-33	PFAM
CA	190	275	1.28e-17	SMART
CA	299	380	7.6e-25	SMART
CA	403	484	5.81e-21	SMART
CA	508	594	9.8e-28	SMART
CA	624	705	1.86e-10	SMART
Pfam:Cadherin_C_2	722	805	2.3e-27	PFAM

Predicted Effect

probably benign
Transcript: ENSMUST00000115661

SMART Domains

Protein: ENSMUSP00000111325
Gene: ENSMUSG00000103458

Domain	Start	End	E-Value	Type
CA	20	131	5.3e-2	SMART
CA	155	240	1.51e-19	SMART
CA	264	348	7.6e-25	SMART
CA	372	453	1.42e-24	SMART
CA	477	563	1.42e-24	SMART
CA	594	674	4.12e-12	SMART
low complexity region	706	721	N/A	INTRINSIC
Pfam:Cadherin_tail	796	930	3.9e-58	PFAM

Predicted Effect

probably benign
Transcript: ENSMUST00000193984

Predicted Effect

probably benign
Transcript: ENSMUST00000194544

SMART Domains

Protein: ENSMUSP00000141847
Gene: ENSMUSG00000102836

Domain	Start	End	E-Value	Type
Blast:CA	18	66	5e-20	BLAST

Meta Mutation Damage Score

0.0898

Coding Region Coverage

1x: 99.9%
3x: 99.7%
10x: 98.6%
20x: 96.0%

Validation Efficiency

98% (101/103)

Allele List at MGI

Other mutations in this stock

Total: 92 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
4930432E11Rik	A	G	7: 29,577,728		noncoding transcript	Het
Aaas	A	T	15: 102,346,676		probably null	Het
Abcc3	G	A	11: 94,364,421	R600W	probably damaging	Het
Abhd13	A	T	8: 9,988,318	Q305L	probably benign	Het
Adcy5	A	T	16: 35,157,116	I340F	probably damaging	Het
Adgrl3	T	A	5: 81,724,147	I964N	probably damaging	Het
Anks1b	T	A	10: 90,077,064	H316Q	probably damaging	Het
Ap3d1	A	T	10: 80,719,130	F454I	possibly damaging	Het
Apol7c	T	C	15: 77,526,399	R116G	possibly damaging	Het
Arhgap5	A	G	12: 52,519,912	E1222G	possibly damaging	Het
AW551984	A	G	9: 39,591,263	V673A	probably benign	Het
Baiap2l1	A	G	5: 144,282,139	S220P	probably damaging	Het
Bcl6	A	G	16: 23,973,176	F143L	probably benign	Het
Calb1	A	T	4: 15,900,811	T165S	probably benign	Het
Ccdc66	C	A	14: 27,506,711	G6C	probably damaging	Het
Ccdc88a	A	G	11: 29,503,484	I344V	probably benign	Het
Cdh19	T	A	1: 110,929,857	D249V	probably damaging	Het
Ces1c	T	A	8: 93,127,599	T103S	probably benign	Het
Cfap54	T	A	10: 92,972,611	K1401*	probably null	Het
Copa	T	A	1: 172,105,222	N371K	probably damaging	Het
Cyp2b10	A	T	7: 25,917,012	Y348F	probably damaging	Het
Dennd5a	T	C	7: 109,905,721	R861G	possibly damaging	Het
Dhx8	T	C	11: 101,733,036		probably benign	Het
Dido1	C	T	2: 180,659,652	W2153*	probably null	Het
Dlgap1	T	A	17: 70,818,161	V969D	probably damaging	Het
Dvl3	A	G	16: 20,517,289	D32G	probably damaging	Het
Epdr1	T	C	13: 19,594,548	D24G	probably benign	Het
Etnk2	T	A	1: 133,379,305		probably null	Het
Fam129a	C	T	1: 151,717,556	T664I	probably benign	Het
Fhad1	C	T	4: 141,905,131	M1232I	probably benign	Het
Gcnt2	A	C	13: 40,860,953	E200A	probably damaging	Het
Gm12800	T	A	4: 101,910,120	F189I	probably benign	Het
Gm5174	A	G	10: 86,656,545		noncoding transcript	Het
Gm6408	T	A	5: 146,484,457	F299I	possibly damaging	Het
Gpr85	G	T	6: 13,836,001	Y301*	probably null	Het
Gucy2e	G	T	11: 69,226,256	P780T	probably damaging	Het
Icam5	A	T	9: 21,034,820	N316I	probably damaging	Het
Ifit1bl1	C	T	19: 34,594,277	R260Q	probably damaging	Het
Il1r1	A	C	1: 40,225,251		probably benign	Het
Kif3c	A	T	12: 3,389,656	I86F	probably benign	Het
Klhdc2	A	G	12: 69,307,693		probably null	Het
Mast2	A	G	4: 116,435,563	L9P	probably damaging	Het
Mcoln1	G	T	8: 3,510,389	C316F	probably damaging	Het
Mon1a	A	T	9: 107,898,695	D4V	probably damaging	Het
Ms4a18	T	A	19: 11,013,674	M19L	probably benign	Het
Nbea	T	C	3: 55,631,971	K2790E	probably benign	Het
Noc3l	C	T	19: 38,814,695	E167K	possibly damaging	Het
Nol10	G	A	12: 17,416,828	E570K	possibly damaging	Het
Nr2e3	T	C	9: 59,949,201	R69G	probably damaging	Het
Obscn	G	A	11: 59,001,468	R1358*	probably null	Het
Olfr115	A	T	17: 37,610,254	F166I	probably damaging	Het
Olfr1472	A	T	19: 13,454,382	M45K	probably benign	Het
Olfr1535	C	A	13: 21,555,096	V309F	probably damaging	Het
Olfr675	A	G	7: 105,024,221	I253T	probably damaging	Het
Pak2	A	T	16: 32,041,519	D175E	probably benign	Het
Pccb	C	T	9: 100,985,803	V357I	possibly damaging	Het
Pcdhb4	C	T	18: 37,308,981	P448L	probably damaging	Het
Ppp3cb	A	G	14: 20,520,690		probably benign	Het
Ppp4r1	A	G	17: 65,824,568	D452G	probably benign	Het
Prmt3	T	A	7: 49,826,751	D369E	probably damaging	Het
Psmd12	T	A	11: 107,486,475	V120D	probably benign	Het
Ptprb	T	C	10: 116,353,827	L1797P	probably damaging	Het
Ptprm	A	G	17: 66,920,196	S653P	probably damaging	Het
Pxdn	T	A	12: 30,003,142	V926D	probably damaging	Het
Retreg3	T	G	11: 101,106,339	Q105P	probably damaging	Het
Sacs	A	T	14: 61,206,441	R1979*	probably null	Het
Scn2a	T	A	2: 65,707,295	L696*	probably null	Het
Sema3c	A	T	5: 17,711,424	N465Y	probably damaging	Het
Slc25a32	A	T	15: 39,099,913	V171E	possibly damaging	Het
Slc30a7	C	T	3: 115,990,051	V158I	probably benign	Het
Slc44a5	G	A	3: 154,270,165		probably benign	Het
Slc4a8	A	G	15: 100,787,164	D140G	probably damaging	Het
Slc7a11	G	A	3: 50,443,083	S60L	possibly damaging	Het
Spryd3	A	T	15: 102,131,937	H59Q	probably benign	Het
Sqstm1	T	C	11: 50,203,022	D256G	probably damaging	Het
Sst	A	T	16: 23,889,737	S115T	probably damaging	Het
Surf1	T	C	2: 26,915,951		probably benign	Het
Synj1	A	T	16: 91,009,977		probably benign	Het
Tet1	C	A	10: 62,878,294	C574F	probably damaging	Het
Thnsl1	T	A	2: 21,212,390	Y318*	probably null	Het
Tmem110	A	G	14: 30,870,819	K166E	probably damaging	Het
Tomm70a	A	G	16: 57,122,130	E90G	probably damaging	Het
Treml4	A	G	17: 48,264,899	D110G	probably damaging	Het
Ttn	A	T	2: 76,811,243	L5176Q	possibly damaging	Het
Txnl1	C	T	18: 63,664,325	G283D	probably damaging	Het
Uba6	T	C	5: 86,135,047	D559G	probably damaging	Het
Usp4	T	C	9: 108,356,462	V94A	possibly damaging	Het
Vmn2r25	A	C	6: 123,825,296	C549W	probably damaging	Het
Vmn2r59	G	T	7: 42,045,681	Q436K	probably benign	Het
Wdr70	A	T	15: 7,884,288	Y627N	possibly damaging	Het
Xpr1	T	C	1: 155,312,863	I344V	probably benign	Het
Zfp423	T	A	8: 87,859,340	Q61L	possibly damaging	Het

Other mutations in Pcdhb9

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL00157:Pcdhb9	APN	18	37403279	missense	possibly damaging	0.59
IGL01557:Pcdhb9	APN	18	37403047	missense	probably damaging	1.00
IGL01716:Pcdhb9	APN	18	37403175	missense	probably damaging	0.99
IGL01954:Pcdhb9	APN	18	37401741	missense	probably damaging	1.00
IGL02063:Pcdhb9	APN	18	37401757	missense	probably benign	0.21
IGL03057:Pcdhb9	APN	18	37401277	missense	probably benign	0.00
R0140:Pcdhb9	UTSW	18	37402961	missense	possibly damaging	0.89
R0180:Pcdhb9	UTSW	18	37402254	missense	probably damaging	1.00
R0349:Pcdhb9	UTSW	18	37402579	missense	probably damaging	0.99
R0616:Pcdhb9	UTSW	18	37401975	nonsense	probably null
R0669:Pcdhb9	UTSW	18	37402255	missense	probably damaging	1.00
R1256:Pcdhb9	UTSW	18	37403116	missense	possibly damaging	0.94
R1642:Pcdhb9	UTSW	18	37400934	intron	probably benign
R1678:Pcdhb9	UTSW	18	37401629	missense	probably damaging	1.00
R1711:Pcdhb9	UTSW	18	37403327	nonsense	probably null
R1762:Pcdhb9	UTSW	18	37403083	missense	probably benign	0.00
R1823:Pcdhb9	UTSW	18	37402818	missense	probably benign	0.14
R1868:Pcdhb9	UTSW	18	37402084	missense	probably damaging	1.00
R1959:Pcdhb9	UTSW	18	37403316	missense	probably damaging	1.00
R2446:Pcdhb9	UTSW	18	37403287	missense	probably damaging	0.99
R2889:Pcdhb9	UTSW	18	37403223	missense	probably benign	0.06
R2890:Pcdhb9	UTSW	18	37403326	missense	probably benign	0.23
R3196:Pcdhb9	UTSW	18	37401610	missense	probably benign	0.02
R3725:Pcdhb9	UTSW	18	37401601	missense	possibly damaging	0.95
R3726:Pcdhb9	UTSW	18	37401601	missense	possibly damaging	0.95
R4179:Pcdhb9	UTSW	18	37401115	missense	probably benign	0.17
R4326:Pcdhb9	UTSW	18	37401822	missense	probably benign	0.04
R4326:Pcdhb9	UTSW	18	37401823	missense	probably benign	0.15
R4327:Pcdhb9	UTSW	18	37401822	missense	probably benign	0.04
R4327:Pcdhb9	UTSW	18	37401823	missense	probably benign	0.15
R4329:Pcdhb9	UTSW	18	37401822	missense	probably benign	0.04
R4329:Pcdhb9	UTSW	18	37401823	missense	probably benign	0.15
R4626:Pcdhb9	UTSW	18	37402249	missense	probably benign	0.01
R4738:Pcdhb9	UTSW	18	37403415	missense	probably benign	0.33
R4888:Pcdhb9	UTSW	18	37403233	missense	probably benign	0.22
R5140:Pcdhb9	UTSW	18	37401133	missense	probably benign	0.00
R5186:Pcdhb9	UTSW	18	37401232	missense	probably damaging	1.00
R5502:Pcdhb9	UTSW	18	37401603	missense	possibly damaging	0.95
R5601:Pcdhb9	UTSW	18	37402206	missense	probably damaging	1.00
R5624:Pcdhb9	UTSW	18	37401406	missense	probably benign
R5827:Pcdhb9	UTSW	18	37401958	missense	possibly damaging	0.72
R5829:Pcdhb9	UTSW	18	37401889	missense	probably damaging	0.97
R5837:Pcdhb9	UTSW	18	37402798	missense	probably damaging	1.00
R6147:Pcdhb9	UTSW	18	37402441	missense	possibly damaging	0.95
R6228:Pcdhb9	UTSW	18	37402062	missense	probably benign	0.00
R6245:Pcdhb9	UTSW	18	37403154	missense	probably damaging	1.00
R6304:Pcdhb9	UTSW	18	37401367	missense	probably damaging	0.99
R6542:Pcdhb9	UTSW	18	37401589	missense	probably damaging	0.99
R6904:Pcdhb9	UTSW	18	37401917	missense	probably benign	0.01
R7058:Pcdhb9	UTSW	18	37403281	missense	probably benign	0.35
R7159:Pcdhb9	UTSW	18	37401492	missense	possibly damaging	0.89
R7258:Pcdhb9	UTSW	18	37402114	missense	probably damaging	1.00
R7800:Pcdhb9	UTSW	18	37401549	missense	probably benign	0.01
R8027:Pcdhb9	UTSW	18	37403016	missense	possibly damaging	0.81
R8141:Pcdhb9	UTSW	18	37402308	missense	probably damaging	1.00
R8157:Pcdhb9	UTSW	18	37403155	missense	probably damaging	1.00
R8729:Pcdhb9	UTSW	18	37402586	missense	possibly damaging	0.88
R8748:Pcdhb9	UTSW	18	37402848	missense	probably damaging	1.00
R8833:Pcdhb9	UTSW	18	37401415	missense	probably benign
R9083:Pcdhb9	UTSW	18	37402717	missense	probably damaging	1.00
R9562:Pcdhb9	UTSW	18	37401612	missense	probably benign
R9779:Pcdhb9	UTSW	18	37402200	missense	probably benign	0.00

Predicted Primers

PCR Primer
(F):5'- CTTTGCAAGCACTATGGAGC -3'
(R):5'- CTCAGGATCCAGCAGTAATCTC -3'

Sequencing Primer
(F):5'- CTTTGCAAGCACTATGGAGCTATAG -3'
(R):5'- CTCTGCTTGTAATCATCAGACAAC -3'

Posted On

2016-10-26