Mutagenetix > Incidental Mutation

Incidental Mutation 'R1439:Nectin3'

160880

Institutional Source

Beutler Lab

Gene Symbol

Nectin3

Ensembl Gene

ENSMUSG00000022656

Gene Name

nectin cell adhesion molecule 3

Synonyms

2610301B19Rik, nectin-3, 3000002N23Rik, Pvrl3, 4921513D19Rik

MMRRC Submission

039494-MU

Accession Numbers

Essential gene?

Possibly non essential (E-score: 0.269) question?

Stock #

R1439 (G1)

Quality Score

225

Status

Validated

Chromosome

Chromosomal Location

46208069-46318888 bp(-) (GRCm39)

Type of Mutation

nonsense

DNA Base Change (assembly)

A to T at 46268757 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Tyrosine to Stop codon at position 548 (Y548*)

Ref Sequence

ENSEMBL: ENSMUSP00000023334 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000023334] [ENSMUST00000023335] [ENSMUST00000096052] [ENSMUST00000121245]

AlphaFold

Q9JLB9

Predicted Effect

probably null
Transcript: ENSMUST00000023334
AA Change: Y548*

SMART Domains

Protein: ENSMUSP00000023334
Gene: ENSMUSG00000022656
AA Change: Y548*

Domain	Start	End	E-Value	Type
low complexity region	24	48	N/A	INTRINSIC
IG	63	167	5.04e-9	SMART
Pfam:C2-set_2	173	257	1.5e-19	PFAM
Pfam:Ig_3	284	342	3.1e-6	PFAM
low complexity region	358	367	N/A	INTRINSIC
transmembrane domain	404	426	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000023335

SMART Domains

Protein: ENSMUSP00000023335
Gene: ENSMUSG00000022656

Domain	Start	End	E-Value	Type
low complexity region	24	48	N/A	INTRINSIC
IG	63	167	5.04e-9	SMART
Pfam:C2-set_2	173	257	2.5e-19	PFAM
Pfam:Ig_2	281	355	1.3e-6	PFAM
transmembrane domain	368	390	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000096052

SMART Domains

Protein: ENSMUSP00000093757
Gene: ENSMUSG00000022656

Domain	Start	End	E-Value	Type
low complexity region	24	48	N/A	INTRINSIC
IG	63	167	5.04e-9	SMART
Pfam:C2-set_2	173	257	2e-19	PFAM
Pfam:Ig_2	281	355	1e-6	PFAM
transmembrane domain	368	390	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000121245

SMART Domains

Protein: ENSMUSP00000113146
Gene: ENSMUSG00000022656

Domain	Start	End	E-Value	Type
transmembrane domain	43	65	N/A	INTRINSIC

Meta Mutation Damage Score

0.9755

Coding Region Coverage

1x: 98.8%
3x: 97.8%
10x: 94.4%
20x: 86.3%

Validation Efficiency

100% (72/72)

MGI Phenotype

FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] This gene encodes a member of the nectin family of proteins, which function as adhesion molecules at adherens junctions. This family member interacts with other nectin-like proteins and with afadin, a filamentous actin-binding protein involved in the regulation of directional motility, cell proliferation and survival. This gene plays a role in ocular development involving the ciliary body. Mutations in this gene are believed to result in congenital ocular defects. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Aug 2011]
PHENOTYPE: Homozygous null mice exhibit male infertility and eye abnormalities including microphthalmia, absent vitreous body, abnormal ciliary body, retinal layers, and lenses. [provided by MGI curators]

Allele List at MGI

Other mutations in this stock

Total: 70 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
Agap1	A	G	1: 89,770,908 (GRCm39)	N499S	probably damaging	Het
AI661453	C	A	17: 47,777,587 (GRCm39)		probably benign	Het
Akap1	C	A	11: 88,735,577 (GRCm39)	G362*	probably null	Het
Alkbh1	A	G	12: 87,475,915 (GRCm39)	V289A	probably damaging	Het
Bnc2	C	T	4: 84,194,305 (GRCm39)	E1035K	probably benign	Het
C1s2	T	A	6: 124,607,126 (GRCm39)		probably benign	Het
Cabin1	A	G	10: 75,492,640 (GRCm39)	I1885T	probably damaging	Het
Col22a1	A	G	15: 71,824,226 (GRCm39)		probably benign	Het
Cpne4	A	T	9: 104,866,831 (GRCm39)	T248S	probably damaging	Het
Cracd	T	C	5: 76,988,757 (GRCm39)	V36A	probably damaging	Het
Cubn	T	C	2: 13,292,379 (GRCm39)	N3268S	probably damaging	Het
Ddx10	T	A	9: 53,151,787 (GRCm39)	K79N	probably damaging	Het
Dennd1a	A	C	2: 37,933,412 (GRCm39)	L131R	probably damaging	Het
Dnah9	T	C	11: 65,764,958 (GRCm39)	Y3862C	probably benign	Het
Eif3e	A	G	15: 43,141,824 (GRCm39)		probably benign	Het
Emsy	T	C	7: 98,250,048 (GRCm39)		probably benign	Het
Ep400	A	T	5: 110,833,344 (GRCm39)	D1959E	unknown	Het
Fpr-rs7	A	G	17: 20,333,869 (GRCm39)	I207T	probably benign	Het
Fubp3	C	A	2: 31,488,563 (GRCm39)	L140I	probably damaging	Het
Gas2l2	T	C	11: 83,318,298 (GRCm39)	D137G	probably damaging	Het
Git1	G	T	11: 77,397,244 (GRCm39)	R699L	possibly damaging	Het
Gnao1	T	A	8: 94,690,065 (GRCm39)	F27L	probably benign	Het
Hlx	G	T	1: 184,464,184 (GRCm39)	A52D	probably damaging	Het
Itga6	T	G	2: 71,664,378 (GRCm39)	Y505D	probably damaging	Het
Itgad	A	T	7: 127,782,178 (GRCm39)	T205S	probably benign	Het
Jakmip3	A	T	7: 138,631,375 (GRCm39)	Y574F	probably benign	Het
Laptm5	G	T	4: 130,653,520 (GRCm39)		probably benign	Het
Mlana	A	T	19: 29,684,252 (GRCm39)	R71S	probably benign	Het
Mroh2a	G	C	1: 88,185,524 (GRCm39)	E1510D	probably damaging	Het
Mus81	G	C	19: 5,535,145 (GRCm39)	R295G	probably benign	Het
Ncapd3	T	A	9: 26,998,862 (GRCm39)		probably null	Het
Nectin1	A	G	9: 43,703,396 (GRCm39)	E218G	possibly damaging	Het
Nif3l1	T	C	1: 58,487,102 (GRCm39)	F96S	probably damaging	Het
Ntrk1	A	G	3: 87,696,918 (GRCm39)		probably null	Het
Obsl1	C	A	1: 75,463,428 (GRCm39)	E1755*	probably null	Het
Or4p23	T	C	2: 88,577,178 (GRCm39)	E18G	possibly damaging	Het
Osbpl9	T	C	4: 108,958,353 (GRCm39)	D74G	probably damaging	Het
Osgin1	T	A	8: 120,169,852 (GRCm39)		probably null	Het
Otogl	A	G	10: 107,615,113 (GRCm39)	Y1931H	probably benign	Het
Pmepa1	A	G	2: 173,069,874 (GRCm39)	I227T	probably benign	Het
Pprc1	T	A	19: 46,052,175 (GRCm39)	N564K	possibly damaging	Het
Prkaa1	T	C	15: 5,194,225 (GRCm39)	F92S	probably damaging	Het
Ptprd	A	G	4: 75,984,437 (GRCm39)	F811L	probably damaging	Het
Rad54b	A	G	4: 11,606,152 (GRCm39)	K520R	possibly damaging	Het
Rbfox1	A	G	16: 7,148,297 (GRCm39)	T269A	possibly damaging	Het
Rfwd3	T	C	8: 112,004,920 (GRCm39)	Y554C	probably damaging	Het
Rfx2	A	T	17: 57,094,720 (GRCm39)	V208E	probably damaging	Het
Rgs22	G	T	15: 36,025,939 (GRCm39)		probably benign	Het
Rrbp1	A	G	2: 143,797,032 (GRCm39)		probably null	Het
Ryr2	C	T	13: 11,729,389 (GRCm39)		probably benign	Het
Sbno1	A	G	5: 124,522,523 (GRCm39)		probably benign	Het
Secisbp2	T	C	13: 51,833,759 (GRCm39)		probably benign	Het
Sgsm2	C	A	11: 74,759,964 (GRCm39)	R58L	probably benign	Het
Slc25a36	A	C	9: 96,975,126 (GRCm39)		probably benign	Het
Spink4	A	G	4: 40,929,121 (GRCm39)	T49A	possibly damaging	Het
Steap3	A	T	1: 120,155,550 (GRCm39)	F470I	probably damaging	Het
Stk10	A	G	11: 32,567,919 (GRCm39)	Q907R	probably damaging	Het
Tdrd5	A	G	1: 156,105,057 (GRCm39)	V446A	probably damaging	Het
Tmem117	G	A	15: 94,992,478 (GRCm39)	M379I	probably benign	Het
Trappc12	A	G	12: 28,797,160 (GRCm39)	L124P	possibly damaging	Het
Trim9	G	A	12: 70,297,867 (GRCm39)	H613Y	probably damaging	Het
Trio	A	G	15: 27,898,000 (GRCm39)	W371R	probably damaging	Het
Ulk4	G	C	9: 121,095,324 (GRCm39)	H110D	possibly damaging	Het
Upb1	T	C	10: 75,275,776 (GRCm39)	V387A	probably benign	Het
Utrn	A	T	10: 12,619,793 (GRCm39)	I284N	possibly damaging	Het
Vmn2r111	C	A	17: 22,790,097 (GRCm39)	W303L	probably benign	Het
Vmn2r15	G	T	5: 109,441,953 (GRCm39)	P160Q	probably damaging	Het
Wdtc1	A	G	4: 133,029,118 (GRCm39)	S323P	probably benign	Het
Zfp846	T	A	9: 20,505,393 (GRCm39)	C418S	possibly damaging	Het
Zfyve26	G	T	12: 79,298,937 (GRCm39)	P441Q	probably benign	Het

Other mutations in Nectin3

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL01456:Nectin3	APN	16	46,279,216 (GRCm39)	missense	probably benign	0.23
R0373:Nectin3	UTSW	16	46,278,550 (GRCm39)	missense	probably damaging	0.99
R0550:Nectin3	UTSW	16	46,279,183 (GRCm39)	missense	possibly damaging	0.86
R1219:Nectin3	UTSW	16	46,275,042 (GRCm39)	nonsense	probably null
R1251:Nectin3	UTSW	16	46,284,205 (GRCm39)	missense	possibly damaging	0.82
R1398:Nectin3	UTSW	16	46,269,119 (GRCm39)	missense	possibly damaging	0.95
R2250:Nectin3	UTSW	16	46,275,099 (GRCm39)	missense	probably benign	0.00
R2448:Nectin3	UTSW	16	46,268,878 (GRCm39)	splice site	probably null
R2483:Nectin3	UTSW	16	46,215,542 (GRCm39)	missense	possibly damaging	0.83
R4523:Nectin3	UTSW	16	46,268,953 (GRCm39)	missense	probably benign	0.15
R4709:Nectin3	UTSW	16	46,284,306 (GRCm39)	missense	possibly damaging	0.58
R4809:Nectin3	UTSW	16	46,268,523 (GRCm39)	intron	probably benign
R4884:Nectin3	UTSW	16	46,269,249 (GRCm39)	missense	probably benign	0.01
R5051:Nectin3	UTSW	16	46,268,913 (GRCm39)	missense	possibly damaging	0.95
R5061:Nectin3	UTSW	16	46,268,812 (GRCm39)	missense	probably benign	0.03
R5272:Nectin3	UTSW	16	46,268,839 (GRCm39)	missense	possibly damaging	0.82
R5365:Nectin3	UTSW	16	46,284,469 (GRCm39)	nonsense	probably null
R5768:Nectin3	UTSW	16	46,279,180 (GRCm39)	missense	probably damaging	0.98
R5987:Nectin3	UTSW	16	46,284,508 (GRCm39)	missense	probably benign	0.00
R6029:Nectin3	UTSW	16	46,256,763 (GRCm39)	missense	probably benign	0.08
R6131:Nectin3	UTSW	16	46,215,515 (GRCm39)	missense	probably damaging	0.98
R6251:Nectin3	UTSW	16	46,215,513 (GRCm39)	missense	probably damaging	0.99
R6299:Nectin3	UTSW	16	46,284,345 (GRCm39)	missense	probably damaging	0.98
R6347:Nectin3	UTSW	16	46,278,487 (GRCm39)	missense	probably benign	0.01
R6360:Nectin3	UTSW	16	46,231,472 (GRCm39)	missense	probably benign	0.09
R6505:Nectin3	UTSW	16	46,269,184 (GRCm39)	missense	possibly damaging	0.68
R6703:Nectin3	UTSW	16	46,284,205 (GRCm39)	missense	probably damaging	0.99
R6869:Nectin3	UTSW	16	46,215,506 (GRCm39)	missense	probably damaging	0.96
R7184:Nectin3	UTSW	16	46,215,484 (GRCm39)	missense	possibly damaging	0.66
R7298:Nectin3	UTSW	16	46,268,759 (GRCm39)	missense	probably damaging	1.00
R7455:Nectin3	UTSW	16	46,317,105 (GRCm39)	nonsense	probably null
R7973:Nectin3	UTSW	16	46,216,484 (GRCm39)	missense	probably benign	0.13
R7993:Nectin3	UTSW	16	46,279,184 (GRCm39)	missense	probably benign	0.01
R8108:Nectin3	UTSW	16	46,284,484 (GRCm39)	missense	possibly damaging	0.84
R8259:Nectin3	UTSW	16	46,256,754 (GRCm39)	missense	probably benign	0.00
R8511:Nectin3	UTSW	16	46,284,363 (GRCm39)	missense	probably damaging	1.00
R8971:Nectin3	UTSW	16	46,269,265 (GRCm39)	missense	probably benign
R9195:Nectin3	UTSW	16	46,279,259 (GRCm39)	nonsense	probably null
R9264:Nectin3	UTSW	16	46,274,998 (GRCm39)	missense	probably damaging	1.00
R9492:Nectin3	UTSW	16	46,215,511 (GRCm39)	missense	probably benign

Predicted Primers

PCR Primer
(F):5'- GCAGCTCAGATACATTGAACCCAGG -3'
(R):5'- ATAGGAGACGACGGACGTTTCGTG -3'

Sequencing Primer
(F):5'- CAGATACATTGAACCCAGGTTTTAC -3'
(R):5'- GATGAGCTGGATTCTTACCCAGAC -3'

Posted On

2014-03-14