Mutagenetix > Incidental Mutation

Incidental Mutation 'R1833:Nectin2'

204953

Institutional Source

Beutler Lab

Gene Symbol

Nectin2

Ensembl Gene

ENSMUSG00000062300

Gene Name

nectin cell adhesion molecule 2

Synonyms

Pvrl2, Cd112, nectin-2, MPH, Pvs

MMRRC Submission

039860-MU

Accession Numbers

Essential gene?

Probably non essential (E-score: 0.140) question?

Stock #

R1833 (G1)

Quality Score

225

Status

Validated

Chromosome

Chromosomal Location

19450569-19483498 bp(-) (GRCm39)

Type of Mutation

missense

DNA Base Change (assembly)

G to T at 19451633 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Proline to Histidine at position 467 (P467H)

Ref Sequence

ENSEMBL: ENSMUSP00000074898 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000032555] [ENSMUST00000075447] [ENSMUST00000093552]

AlphaFold

P32507

PDB Structure

Crystal structure of mouse nectin-2 extracellular fragment D1-D2 [X-RAY DIFFRACTION]
Crystal structure of mouse nectin-2 extracellular fragment D1-D2, 2nd crystal form [X-RAY DIFFRACTION]
Crystal structure of mutant F136D of mouse nectin-2 extracellular fragment D1-D2 [X-RAY DIFFRACTION]

Predicted Effect

probably benign
Transcript: ENSMUST00000032555

SMART Domains

Protein: ENSMUSP00000032555
Gene: ENSMUSG00000002984

Domain	Start	End	E-Value	Type
low complexity region	8	69	N/A	INTRINSIC
Pfam:Porin_3	79	355	7.7e-85	PFAM

Predicted Effect

probably damaging
Transcript: ENSMUST00000075447
AA Change: P467H

PolyPhen 2 Score 0.960 (Sensitivity: 0.78; Specificity: 0.95)

SMART Domains

Protein: ENSMUSP00000074898
Gene: ENSMUSG00000062300
AA Change: P467H

Domain	Start	End	E-Value	Type
signal peptide	1	31	N/A	INTRINSIC
IGv	49	133	3.59e-14	SMART
IG_like	159	249	5.31e1	SMART
IG_like	261	338	8.12e1	SMART
transmembrane domain	351	373	N/A	INTRINSIC
low complexity region	455	478	N/A	INTRINSIC
low complexity region	486	496	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000093552

SMART Domains

Protein: ENSMUSP00000104090
Gene: ENSMUSG00000002984

Domain	Start	End	E-Value	Type
low complexity region	8	69	N/A	INTRINSIC
Pfam:Porin_3	79	355	1.5e-81	PFAM

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000172483

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000173966

Meta Mutation Damage Score

0.6467

Coding Region Coverage

1x: 97.4%
3x: 96.8%
10x: 95.1%
20x: 91.9%

Validation Efficiency

99% (83/84)

MGI Phenotype

FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] This gene encodes a single-pass type I membrane glycoprotein with two Ig-like C2-type domains and an Ig-like V-type domain. This protein is one of the plasma membrane components of adherens junctions. It also serves as an entry for certain mutant strains of herpes simplex virus and pseudorabies virus, and it is involved in cell to cell spreading of these viruses. Variations in this gene have been associated with differences in the severity of multiple sclerosis. Alternate transcriptional splice variants, encoding different isoforms, have been characterized. [provided by RefSeq, Jul 2008]
PHENOTYPE: Mice homozygous for targeted null mutations exhibit male sterility associated with sperm head and midpiece malformation, impaired zona binding, and lack of oocyte penetration. [provided by MGI curators]

Allele List at MGI

Other mutations in this stock

Total: 79 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
1700003H04Rik	T	A	3: 124,350,509 (GRCm39)	D143V	unknown	Het
4930438A08Rik	C	T	11: 58,179,214 (GRCm39)	Q183*	probably null	Het
9230009I02Rik	A	G	11: 50,982,293 (GRCm39)		noncoding transcript	Het
Abhd12	T	A	2: 150,690,338 (GRCm39)	D119V	probably damaging	Het
Adam1b	A	G	5: 121,641,000 (GRCm39)	I15T	possibly damaging	Het
Agtpbp1	A	T	13: 59,613,797 (GRCm39)		probably null	Het
Arfgef1	G	C	1: 10,275,115 (GRCm39)	I312M	probably benign	Het
Arid4a	C	T	12: 71,122,240 (GRCm39)	L874F	possibly damaging	Het
Bcas3	G	A	11: 85,474,775 (GRCm39)	V317I	probably benign	Het
Ccr1	T	A	9: 123,764,126 (GRCm39)	I135F	probably damaging	Het
Ces2h	A	G	8: 105,747,005 (GRCm39)	E547G	possibly damaging	Het
Ces3b	T	A	8: 105,812,271 (GRCm39)	D173E	probably damaging	Het
Chd3	A	G	11: 69,244,949 (GRCm39)	L1197S	probably damaging	Het
Cngb1	A	G	8: 95,968,983 (GRCm39)	L1175P	probably damaging	Het
Cyp4f17	T	C	17: 32,743,184 (GRCm39)	F286L	probably benign	Het
Dclre1a	C	T	19: 56,529,932 (GRCm39)		probably null	Het
Dennd6a	T	A	14: 26,328,109 (GRCm39)	L44H	probably damaging	Het
Dhx16	A	G	17: 36,196,511 (GRCm39)	T560A	probably benign	Het
Dusp12	T	C	1: 170,702,022 (GRCm39)	M326V	probably benign	Het
Eif3k	T	C	7: 28,670,852 (GRCm39)	I180V	probably benign	Het
Erc1	A	G	6: 119,720,390 (GRCm39)	I437T	possibly damaging	Het
Farp2	T	A	1: 93,504,086 (GRCm39)		probably benign	Het
Foxa3	A	G	7: 18,748,499 (GRCm39)	L209P	probably damaging	Het
Garin2	G	A	12: 78,762,280 (GRCm39)		probably benign	Het
Gen1	A	T	12: 11,298,352 (GRCm39)		probably benign	Het
Gm10305	A	G	4: 99,161,363 (GRCm39)	T91A	unknown	Het
Gm14412	T	C	2: 177,007,583 (GRCm39)	D104G	probably benign	Het
Gm6900	T	C	7: 10,390,515 (GRCm39)		noncoding transcript	Het
Gpx1	A	T	9: 108,216,555 (GRCm39)	Y15F	possibly damaging	Het
H2-M10.3	T	C	17: 36,678,387 (GRCm39)	Y146C	probably damaging	Het
H2-Q7	C	A	17: 35,658,675 (GRCm39)	S104R	probably benign	Het
Hephl1	T	C	9: 14,988,224 (GRCm39)	Y628C	probably damaging	Het
Hspa5	T	A	2: 34,666,065 (GRCm39)	Y636*	probably null	Het
Htt	A	G	5: 35,063,092 (GRCm39)		probably benign	Het
Idh1	T	C	1: 65,200,273 (GRCm39)	I364V	probably benign	Het
Itgae	G	T	11: 73,007,988 (GRCm39)	A423S	possibly damaging	Het
Kng2	T	C	16: 22,830,802 (GRCm39)	N169S	possibly damaging	Het
Larp4b	C	T	13: 9,201,235 (GRCm39)	T369I	possibly damaging	Het
Lcor	T	C	19: 41,573,387 (GRCm39)	I714T	probably benign	Het
Lhfpl7	A	G	5: 113,382,435 (GRCm39)		probably benign	Het
Lonrf2	G	A	1: 38,852,357 (GRCm39)	P165S	probably benign	Het
Magi2	G	T	5: 19,432,455 (GRCm39)	G57C	probably damaging	Het
Mdn1	T	A	4: 32,720,761 (GRCm39)	H2291Q	probably damaging	Het
Mgam	T	C	6: 40,631,652 (GRCm39)		probably null	Het
Micall2	A	G	5: 139,702,508 (GRCm39)	V245A	probably benign	Het
Mipep	T	G	14: 61,109,512 (GRCm39)	Y630D	probably damaging	Het
Msx2	A	T	13: 53,622,221 (GRCm39)	M263K	probably damaging	Het
Nek10	A	T	14: 14,842,789 (GRCm38)	M165L	probably benign	Het
Nlrp4b	A	T	7: 10,459,863 (GRCm39)	M455L	probably benign	Het
Oaz3	TGGAGGCAGGAGCACGGGAGGCAGGAGCACGGGAGGCAG	TGGAGGCAGGAGCACGGGAGGCAG	3: 94,343,349 (GRCm39)		probably benign	Het
Or10ad1b	T	A	15: 98,124,846 (GRCm39)	I227F	probably damaging	Het
Or4c10	T	A	2: 89,760,645 (GRCm39)	L164*	probably null	Het
Pcx	T	A	19: 4,669,132 (GRCm39)	V710E	probably damaging	Het
Pkn2	C	T	3: 142,527,408 (GRCm39)	R347Q	probably damaging	Het
Pramel51	T	C	12: 88,145,218 (GRCm39)	E44G	possibly damaging	Het
Qsox1	C	T	1: 155,666,791 (GRCm39)	G233S	probably benign	Het
Rbl1	T	A	2: 157,037,475 (GRCm39)	N224I	probably damaging	Het
Rspry1	A	G	8: 95,362,116 (GRCm39)	T132A	probably damaging	Het
Sclt1	A	G	3: 41,681,546 (GRCm39)	V91A	probably damaging	Het
Sema4f	A	T	6: 82,895,540 (GRCm39)	L331H	probably benign	Het
Sf3b3	T	A	8: 111,544,198 (GRCm39)	Q814L	probably benign	Het
Slc19a2	T	G	1: 164,089,753 (GRCm39)	Y190D	probably damaging	Het
Smarcc1	T	A	9: 109,982,879 (GRCm39)	H204Q	possibly damaging	Het
Sox6	T	C	7: 115,376,328 (GRCm39)	K135E	probably damaging	Het
Tecpr1	T	C	5: 144,145,426 (GRCm39)	Q607R	probably damaging	Het
Tgfb1i1	A	G	7: 127,848,670 (GRCm39)		probably benign	Het
Tirap	T	G	9: 35,099,999 (GRCm39)	R228S	probably benign	Het
Trp53bp2	T	A	1: 182,256,581 (GRCm39)	H50Q	probably damaging	Het
Try4	A	G	6: 41,280,365 (GRCm39)	H63R	probably damaging	Het
Vmn2r25	G	A	6: 123,816,643 (GRCm39)	P313S	probably benign	Het
Vps26a	A	C	10: 62,294,825 (GRCm39)	L250V	probably benign	Het
Vwf	A	G	6: 125,619,000 (GRCm39)	H1226R	probably benign	Het
Wdtc1	TCC	TC	4: 133,036,053 (GRCm39)		probably benign	Het
Zc3hav1l	A	T	6: 38,274,881 (GRCm39)		probably benign	Het
Zfp119b	T	G	17: 56,246,271 (GRCm39)	H305P	probably damaging	Het
Zfp326	C	T	5: 106,039,035 (GRCm39)	Q134*	probably null	Het
Zfp975	C	T	7: 42,311,263 (GRCm39)	R450Q	probably benign	Het
Zfyve26	A	T	12: 79,333,032 (GRCm39)	M313K	probably benign	Het
Zscan5b	T	C	7: 6,241,965 (GRCm39)	S395P	possibly damaging	Het

Other mutations in Nectin2

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL01982:Nectin2	APN	7	19,451,487 (GRCm39)	missense	probably damaging	1.00
IGL03184:Nectin2	APN	7	19,472,231 (GRCm39)	missense	possibly damaging	0.86
PIT4458001:Nectin2	UTSW	7	19,472,252 (GRCm39)	missense	probably benign	0.19
R0012:Nectin2	UTSW	7	19,464,669 (GRCm39)	splice site	probably benign
R0012:Nectin2	UTSW	7	19,464,669 (GRCm39)	splice site	probably benign
R0555:Nectin2	UTSW	7	19,467,148 (GRCm39)	splice site	probably benign
R0764:Nectin2	UTSW	7	19,483,096 (GRCm39)	splice site	probably null
R1252:Nectin2	UTSW	7	19,451,523 (GRCm39)	missense	probably benign	0.18
R1465:Nectin2	UTSW	7	19,464,041 (GRCm39)	missense	probably benign
R1465:Nectin2	UTSW	7	19,464,041 (GRCm39)	missense	probably benign
R2115:Nectin2	UTSW	7	19,451,489 (GRCm39)	missense	probably damaging	0.98
R2168:Nectin2	UTSW	7	19,464,539 (GRCm39)	missense	probably damaging	0.98
R3801:Nectin2	UTSW	7	19,451,561 (GRCm39)	missense	probably benign
R3825:Nectin2	UTSW	7	19,458,510 (GRCm39)	missense	possibly damaging	0.94
R4877:Nectin2	UTSW	7	19,451,645 (GRCm39)	missense	possibly damaging	0.55
R5062:Nectin2	UTSW	7	19,472,198 (GRCm39)	missense	probably benign	0.09
R5082:Nectin2	UTSW	7	19,472,049 (GRCm39)	missense	probably damaging	0.99
R5693:Nectin2	UTSW	7	19,458,794 (GRCm39)	missense	probably benign	0.00
R6042:Nectin2	UTSW	7	19,472,063 (GRCm39)	missense	probably benign	0.01
R6060:Nectin2	UTSW	7	19,451,700 (GRCm39)	missense	probably damaging	1.00
R6657:Nectin2	UTSW	7	19,472,065 (GRCm39)	missense	probably benign	0.41
R7437:Nectin2	UTSW	7	19,483,193 (GRCm39)	nonsense	probably null
R7476:Nectin2	UTSW	7	19,451,546 (GRCm39)	missense	possibly damaging	0.82
R7523:Nectin2	UTSW	7	19,464,037 (GRCm39)	missense	probably benign	0.00
R7538:Nectin2	UTSW	7	19,464,544 (GRCm39)	missense	probably damaging	1.00
R7910:Nectin2	UTSW	7	19,466,912 (GRCm39)	nonsense	probably null
R8181:Nectin2	UTSW	7	19,458,733 (GRCm39)	missense	probably damaging	1.00
R8394:Nectin2	UTSW	7	19,467,137 (GRCm39)	critical splice acceptor site	probably null
R8406:Nectin2	UTSW	7	19,472,275 (GRCm39)	missense	probably damaging	0.99
R8419:Nectin2	UTSW	7	19,472,003 (GRCm39)	missense	probably damaging	1.00
R8419:Nectin2	UTSW	7	19,451,646 (GRCm39)	missense	probably benign	0.00
R9188:Nectin2	UTSW	7	19,453,119 (GRCm39)	critical splice donor site	probably null
Z1176:Nectin2	UTSW	7	19,472,288 (GRCm39)	missense	probably benign	0.15

Predicted Primers

PCR Primer
(F):5'- ACATACATGGCCCGTGACAC -3'
(R):5'- CTGTACAGAGAAGTTTGGTCGAG -3'

Sequencing Primer
(F):5'- AGGAAGTCTTCCTCCTCA -3'
(R):5'- AAAGGATGGCAGTGGTGTAGTTG -3'

Posted On

2014-06-23