Mutagenetix > Incidental Mutation

Incidental Mutation 'R5930:Nlgn2'

460194

Institutional Source

Beutler Lab

Gene Symbol

Nlgn2

Ensembl Gene

ENSMUSG00000051790

Gene Name

neuroligin 2

Synonyms

NL2

MMRRC Submission

044125-MU

Accession Numbers

Is this an essential gene?

Non essential (E-score: 0.000) question?

Stock #

R5930 (G1)

Quality Score

113

Status

Validated

Chromosome

Chromosomal Location

69823122-69837784 bp(-) (GRCm38)

Type of Mutation

missense

DNA Base Change (assembly)

C to T at 69834149 bp (GRCm38)

Zygosity

Heterozygous

Amino Acid Change

Arginine to Histidine at position 97 (R97H)

Ref Sequence

ENSEMBL: ENSMUSP00000104274 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000056484] [ENSMUST00000094065] [ENSMUST00000108634]

AlphaFold

Q69ZK9

Predicted Effect

probably damaging
Transcript: ENSMUST00000056484
AA Change: R97H

PolyPhen 2 Score 1.000 (Sensitivity: 0.00; Specificity: 1.00)

SMART Domains

Protein: ENSMUSP00000053097
Gene: ENSMUSG00000051790
AA Change: R97H

Domain	Start	End	E-Value	Type
Pfam:COesterase	31	601	1.6e-199	PFAM
Pfam:Abhydrolase_3	180	372	4.8e-9	PFAM
low complexity region	630	652	N/A	INTRINSIC
transmembrane domain	678	700	N/A	INTRINSIC
low complexity region	702	712	N/A	INTRINSIC
low complexity region	713	731	N/A	INTRINSIC
low complexity region	782	823	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000094065

SMART Domains

Protein: ENSMUSP00000091608
Gene: ENSMUSG00000070394

Domain	Start	End	E-Value	Type
Pfam:DUF423	21	102	1.7e-20	PFAM

Predicted Effect

probably damaging
Transcript: ENSMUST00000108634
AA Change: R97H

PolyPhen 2 Score 1.000 (Sensitivity: 0.00; Specificity: 1.00)

SMART Domains

Protein: ENSMUSP00000104274
Gene: ENSMUSG00000051790
AA Change: R97H

Domain	Start	End	E-Value	Type
Pfam:COesterase	30	601	2e-186	PFAM
Pfam:Abhydrolase_3	180	327	3.3e-9	PFAM
low complexity region	630	652	N/A	INTRINSIC
transmembrane domain	678	700	N/A	INTRINSIC
low complexity region	702	712	N/A	INTRINSIC
low complexity region	713	731	N/A	INTRINSIC
low complexity region	782	823	N/A	INTRINSIC

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000128281

Predicted Effect

probably benign
Transcript: ENSMUST00000133967

SMART Domains

Protein: ENSMUSP00000114883
Gene: ENSMUSG00000070394

Domain	Start	End	E-Value	Type
Pfam:DUF423	13	94	5.7e-18	PFAM

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000139085

Predicted Effect

unknown
Transcript: ENSMUST00000139893
AA Change: R37H

SMART Domains

Protein: ENSMUSP00000120428
Gene: ENSMUSG00000051790
AA Change: R37H

Domain	Start	End	E-Value	Type
Pfam:COesterase	1	262	9.3e-120	PFAM
Pfam:Abhydrolase_3	104	250	2e-9	PFAM

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000156556

Meta Mutation Damage Score

0.7790

Coding Region Coverage

1x: 99.9%
3x: 99.6%
10x: 98.1%
20x: 94.5%

Validation Efficiency

94% (102/109)

MGI Phenotype

FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] This gene encodes a member of a family of neuronal cell surface proteins. Members of this family may act as splice site-specific ligands for beta-neurexins and may be involved in the formation and remodeling of central nervous system synapses. [provided by RefSeq, Jul 2008]
PHENOTYPE: Mice homozygous for a conditional ready allele are viable and fertile. [provided by MGI curators]

Allele List at MGI

Other mutations in this stock

Total: 97 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
Adgrv1	C	T	13: 81,397,451	V5572I	probably benign	Het
AF366264	T	A	8: 13,837,263	D276V	probably benign	Het
Agap1	C	T	1: 89,843,096	T656I	probably damaging	Het
Als2cl	C	T	9: 110,887,364	R247W	probably damaging	Het
Ankfy1	A	T	11: 72,712,245	R33S	probably benign	Het
Ano5	T	C	7: 51,585,331	F671L	probably damaging	Het
Arhgap26	A	G	18: 39,150,092	M361V	probably damaging	Het
Bckdk	A	G	7: 127,905,973	E175G	probably damaging	Het
Bptf	G	T	11: 107,073,196	T1724K	probably damaging	Het
Btn2a2	T	A	13: 23,486,228	I112F	probably damaging	Het
Cd163l1	C	T	7: 140,230,446	P984S	probably benign	Het
Cln8	T	A	8: 14,896,621	W212R	probably damaging	Het
Cnbd1	T	C	4: 18,886,119	E300G	probably benign	Het
Cnksr3	T	C	10: 7,142,993	I173V	probably benign	Het
Cntn2	T	A	1: 132,523,432	D484V	probably damaging	Het
Cyp4a14	C	A	4: 115,491,410	G319V	probably damaging	Het
Cyp4f37	G	A	17: 32,629,983	R275Q	possibly damaging	Het
Def8	C	T	8: 123,460,070		probably benign	Het
Dnah10	T	C	5: 124,791,791		probably null	Het
Dock6	A	G	9: 21,824,416	V1012A	probably benign	Het
Dus3l	T	A	17: 56,769,579	N586K	probably damaging	Het
Dyrk2	T	A	10: 118,860,268	I362F	probably damaging	Het
Dyx1c1	T	C	9: 72,971,998	V356A	probably damaging	Het
Erc2	T	A	14: 27,776,858	D230E	probably damaging	Het
Fam102b	A	T	3: 108,980,152	S265R	probably benign	Het
Fat1	A	G	8: 45,044,036	H4186R	probably benign	Het
Fbxo44	A	G	4: 148,156,595	F179S	probably damaging	Het
Fech	A	G	18: 64,478,649		probably null	Het
Fer1l5	T	A	1: 36,385,173	C289*	probably null	Het
Fhl5	T	A	4: 25,214,756	D7V	probably benign	Het
Flvcr1	G	T	1: 191,009,551	T514K	probably damaging	Het
Fmo1	A	T	1: 162,839,616		probably null	Het
Gabra6	G	A	11: 42,307,441	T384M	probably benign	Het
Gli3	A	G	13: 15,548,625	Y117C	probably damaging	Het
Gnao1	A	G	8: 93,896,245	D59G	probably benign	Het
Gria2	T	C	3: 80,707,249	I495V	possibly damaging	Het
Hnf1b	C	A	11: 83,863,985	H161Q	probably benign	Het
Itga8	T	A	2: 12,230,208	D413V	possibly damaging	Het
Itpr3	A	T	17: 27,110,921	Q1563L	possibly damaging	Het
Kctd16	A	G	18: 40,530,829	N337S	probably benign	Het
Klra4	C	T	6: 130,053,053	V190M	possibly damaging	Het
Krtap4-9	T	A	11: 99,785,636		probably benign	Het
L3mbtl1	GGCCG	GG	2: 162,967,336		probably benign	Het
Mchr1	T	C	15: 81,237,843	F265L	probably damaging	Het
Megf8	T	A	7: 25,326,441	Y83*	probably null	Het
Mettl18	A	G	1: 163,997,177	M356V	probably null	Het
Mrm1	G	A	11: 84,819,192	R61W	probably damaging	Het
Muc4	A	T	16: 32,751,705	T528S	probably benign	Het
Myef2	A	T	2: 125,095,731	L530*	probably null	Het
Nhlrc4	T	C	17: 25,943,719	E18G	probably benign	Het
Nisch	C	T	14: 31,173,145	V1065I	probably benign	Het
Nos2	T	C	11: 78,937,915	L321S	probably damaging	Het
Oaz3	T	C	3: 94,436,410	M49V	possibly damaging	Het
Olfm5	A	G	7: 104,154,155	V367A	probably damaging	Het
Olfr130	C	A	17: 38,067,750	A193D	probably benign	Het
Olfr1335	C	T	4: 118,809,378	R162H	probably benign	Het
Olfr564	A	T	7: 102,804,274	R265S	probably damaging	Het
Olfr742	C	A	14: 50,515,792	A196D	probably benign	Het
Olfr77	A	G	9: 19,920,910	K234E	probably damaging	Het
Omd	C	T	13: 49,589,636	P54L	possibly damaging	Het
Pard3b	T	A	1: 61,768,130		probably benign	Het
Pcdhb18	A	C	18: 37,491,935	I773L	possibly damaging	Het
Pde11a	T	C	2: 76,139,831		probably null	Het
Pfkfb4	A	C	9: 109,030,394		probably benign	Het
Phb2	T	G	6: 124,715,649	I260S	probably damaging	Het
Pkd1l1	G	A	11: 8,958,969	T345I	unknown	Het
Pla2g6	T	C	15: 79,303,528		probably benign	Het
Pou4f2	G	A	8: 78,436,391	S5F	unknown	Het
Ppp1r9a	A	T	6: 5,157,002		probably null	Het
Pramel5	A	G	4: 144,272,983	I178T	probably benign	Het
Prom2	C	T	2: 127,530,133	W745*	probably null	Het
Pros1	T	A	16: 62,928,061	N632K	probably damaging	Het
Rab4b	A	G	7: 27,174,502	I117T	probably benign	Het
Rbm25	T	A	12: 83,677,866	H796Q	possibly damaging	Het
Rnf151	A	T	17: 24,718,030		probably null	Het
Rps6ka1	A	T	4: 133,871,571	L97I	probably damaging	Het
Sergef	T	A	7: 46,443,464	T374S	probably benign	Het
Sh3rf3	G	T	10: 59,130,986	G717C	probably damaging	Het
Slc29a4	C	T	5: 142,721,402	T500I	possibly damaging	Het
Smc1b	T	A	15: 85,086,121	D977V	probably damaging	Het
Spata31d1d	C	T	13: 59,727,015	C902Y	probably benign	Het
St14	A	T	9: 31,103,760	V314D	probably damaging	Het
Stat3	A	T	11: 100,893,670	I602N	possibly damaging	Het
Stx4a	T	A	7: 127,846,489	I189N	probably damaging	Het
Tacc1	A	G	8: 25,182,199	S338P	probably benign	Het
Tcirg1	T	A	19: 3,902,424	T315S	possibly damaging	Het
Tenm4	A	T	7: 96,854,719	N1295I	probably damaging	Het
Tm7sf3	T	C	6: 146,603,911	K516E	possibly damaging	Het
Tmem198b	T	C	10: 128,801,454	E272G	possibly damaging	Het
Tnip3	A	G	6: 65,605,953	Q237R	probably damaging	Het
Trim15	C	T	17: 36,862,360		probably null	Het
Trim30a	T	A	7: 104,421,450	N252I	possibly damaging	Het
Ttc39a	A	G	4: 109,430,878	E227G	probably benign	Het
Ttll13	A	G	7: 80,253,166	E194G	probably damaging	Het
Upf1	G	A	8: 70,344,262	T107I	probably benign	Het
Vac14	A	G	8: 110,710,349	I565V	probably damaging	Het
Zcchc14	A	T	8: 121,611,358		probably benign	Het

Other mutations in Nlgn2

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL01845:Nlgn2	APN	11	69825849	missense	possibly damaging	0.78
IGL02649:Nlgn2	APN	11	69825802	missense	probably benign	0.04
IGL02887:Nlgn2	APN	11	69827254	missense	probably benign	0.24
IGL02904:Nlgn2	APN	11	69825840	missense	possibly damaging	0.91
P0040:Nlgn2	UTSW	11	69825730	missense	probably benign	0.01
R0800:Nlgn2	UTSW	11	69825997	missense	possibly damaging	0.92
R1901:Nlgn2	UTSW	11	69825900	missense	probably damaging	1.00
R1960:Nlgn2	UTSW	11	69827310	missense	probably damaging	1.00
R1997:Nlgn2	UTSW	11	69828050	missense	probably damaging	1.00
R2020:Nlgn2	UTSW	11	69828441	missense	probably damaging	1.00
R2426:Nlgn2	UTSW	11	69827086	missense	probably damaging	1.00
R3768:Nlgn2	UTSW	11	69828404	missense	possibly damaging	0.95
R4584:Nlgn2	UTSW	11	69834278	missense	possibly damaging	0.48
R4609:Nlgn2	UTSW	11	69834086	missense	probably damaging	0.99
R5028:Nlgn2	UTSW	11	69827737	missense	probably benign	0.11
R5141:Nlgn2	UTSW	11	69825390	missense	probably damaging	1.00
R5149:Nlgn2	UTSW	11	69825390	missense	probably damaging	1.00
R5150:Nlgn2	UTSW	11	69825390	missense	probably damaging	1.00
R5458:Nlgn2	UTSW	11	69827900	missense	possibly damaging	0.87
R6823:Nlgn2	UTSW	11	69825924	missense	probably damaging	1.00
R7096:Nlgn2	UTSW	11	69825690	missense	probably damaging	1.00
R7310:Nlgn2	UTSW	11	69830583	missense	possibly damaging	0.64
R7318:Nlgn2	UTSW	11	69825969	missense	probably damaging	1.00
R7643:Nlgn2	UTSW	11	69827885	missense	probably damaging	1.00
R7912:Nlgn2	UTSW	11	69825934	missense	probably damaging	1.00
R8679:Nlgn2	UTSW	11	69825483	missense	probably benign	0.00
R8870:Nlgn2	UTSW	11	69825471	missense	possibly damaging	0.78
R8932:Nlgn2	UTSW	11	69828168	missense	probably damaging	1.00
R9232:Nlgn2	UTSW	11	69828029	missense	probably damaging	1.00
R9402:Nlgn2	UTSW	11	69828107	missense
Z1186:Nlgn2	UTSW	11	69828394	missense	possibly damaging	0.57
Z1187:Nlgn2	UTSW	11	69828394	missense	possibly damaging	0.57
Z1188:Nlgn2	UTSW	11	69828394	missense	possibly damaging	0.57
Z1189:Nlgn2	UTSW	11	69828394	missense	possibly damaging	0.57
Z1190:Nlgn2	UTSW	11	69828394	missense	possibly damaging	0.57
Z1191:Nlgn2	UTSW	11	69828394	missense	possibly damaging	0.57
Z1192:Nlgn2	UTSW	11	69828394	missense	possibly damaging	0.57

Predicted Primers

PCR Primer
(F):5'- AAGTCGGTCCTGTGCTTGAG -3'
(R):5'- AGAGAAATAGACTCCTCTTCTGTCCC -3'

Sequencing Primer
(F):5'- TGTGTCTACAGGGTGCCC -3'
(R):5'- TCCCCCAATCAGCATGTGG -3'

Posted On

2017-02-28