Mutagenetix > Incidental Mutation

Incidental Mutation 'R0537:Lypd1'

49477

Institutional Source

Beutler Lab

Gene Symbol

Lypd1

Ensembl Gene

ENSMUSG00000026344

Gene Name

Ly6/Plaur domain containing 1

Synonyms

C530008O16Rik, 2700050C12Rik, Lynx2

MMRRC Submission

038729-MU

Accession Numbers

Essential gene?

Probably non essential (E-score: 0.060) question?

Stock #

R0537 (G1)

Quality Score

225

Status

Validated

Chromosome

Chromosomal Location

125795359-125840838 bp(-) (GRCm39)

Type of Mutation

unclassified

DNA Base Change (assembly)

A to G at 125840604 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Ref Sequence

ENSEMBL: ENSMUSP00000125158 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000027582] [ENSMUST00000057846] [ENSMUST00000094609] [ENSMUST00000094610] [ENSMUST00000112583] [ENSMUST00000159417] [ENSMUST00000159529] [ENSMUST00000162899] [ENSMUST00000161954] [ENSMUST00000161361] [ENSMUST00000162877]

AlphaFold

Q8BLC3

Predicted Effect

probably benign
Transcript: ENSMUST00000027582

SMART Domains

Protein: ENSMUSP00000027582
Gene: ENSMUSG00000026344

Domain	Start	End	E-Value	Type
LU	24	122	5.18e-2	SMART
low complexity region	126	142	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000057846

SMART Domains

Protein: ENSMUSP00000062229
Gene: ENSMUSG00000049690

Domain	Start	End	E-Value	Type
low complexity region	2	25	N/A	INTRINSIC
coiled coil region	108	186	N/A	INTRINSIC
low complexity region	321	332	N/A	INTRINSIC
low complexity region	755	771	N/A	INTRINSIC
low complexity region	950	971	N/A	INTRINSIC
low complexity region	1070	1085	N/A	INTRINSIC
low complexity region	1181	1200	N/A	INTRINSIC
Pfam:NCKAP5	1298	1602	1.8e-120	PFAM
low complexity region	1728	1742	N/A	INTRINSIC
low complexity region	1757	1771	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000094609

SMART Domains

Protein: ENSMUSP00000092192
Gene: ENSMUSG00000049690

Domain	Start	End	E-Value	Type
low complexity region	70	93	N/A	INTRINSIC
Pfam:NCKAP5	113	364	3.6e-36	PFAM

Predicted Effect

probably benign
Transcript: ENSMUST00000094610

SMART Domains

Protein: ENSMUSP00000092193
Gene: ENSMUSG00000049690

Domain	Start	End	E-Value	Type
Pfam:NCKAP5	1	101	8.8e-42	PFAM

Predicted Effect

probably benign
Transcript: ENSMUST00000112583

SMART Domains

Protein: ENSMUSP00000108202
Gene: ENSMUSG00000049690

Domain	Start	End	E-Value	Type
low complexity region	70	93	N/A	INTRINSIC
coiled coil region	176	254	N/A	INTRINSIC
low complexity region	301	324	N/A	INTRINSIC
low complexity region	453	464	N/A	INTRINSIC
low complexity region	887	903	N/A	INTRINSIC
low complexity region	1082	1103	N/A	INTRINSIC
low complexity region	1202	1217	N/A	INTRINSIC
low complexity region	1313	1332	N/A	INTRINSIC
Pfam:NCKAP5	1431	1733	5.3e-119	PFAM
low complexity region	1860	1874	N/A	INTRINSIC
low complexity region	1889	1903	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000159417

SMART Domains

Protein: ENSMUSP00000125149
Gene: ENSMUSG00000026344

Domain	Start	End	E-Value	Type
signal peptide	1	20	N/A	INTRINSIC
LU	23	121	2.5e-4	SMART
low complexity region	125	140	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000159529

SMART Domains

Protein: ENSMUSP00000123824
Gene: ENSMUSG00000026344

Domain	Start	End	E-Value	Type
Blast:LU	1	69	4e-32	BLAST
low complexity region	73	89	N/A	INTRINSIC

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000160736

Predicted Effect

probably benign
Transcript: ENSMUST00000162899

SMART Domains

Protein: ENSMUSP00000125158
Gene: ENSMUSG00000026344

Domain	Start	End	E-Value	Type
Blast:LU	1	69	4e-32	BLAST
low complexity region	73	89	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000161954

SMART Domains

Protein: ENSMUSP00000125624
Gene: ENSMUSG00000049690

Domain	Start	End	E-Value	Type
low complexity region	2	25	N/A	INTRINSIC
coiled coil region	108	186	N/A	INTRINSIC
low complexity region	233	256	N/A	INTRINSIC
low complexity region	385	396	N/A	INTRINSIC
low complexity region	819	835	N/A	INTRINSIC
low complexity region	1014	1035	N/A	INTRINSIC
low complexity region	1134	1149	N/A	INTRINSIC
low complexity region	1245	1264	N/A	INTRINSIC
Pfam:NCKAP5	1362	1666	2.1e-120	PFAM
low complexity region	1792	1806	N/A	INTRINSIC
low complexity region	1821	1835	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000161361

Predicted Effect

probably benign
Transcript: ENSMUST00000162877

SMART Domains

Protein: ENSMUSP00000124748
Gene: ENSMUSG00000049690

Domain	Start	End	E-Value	Type
Pfam:NCKAP5	9	296	6e-36	PFAM

Meta Mutation Damage Score

0.0898

Coding Region Coverage

1x: 99.2%
3x: 98.5%
10x: 96.7%
20x: 93.9%

Validation Efficiency

100% (53/53)

MGI Phenotype

PHENOTYPE: Mice homozygous for a null allele exhibit increased fear and anxiety behaviors with increased spontaneous excitatory postsynaptic current following nicotine treatment. [provided by MGI curators]

Allele List at MGI

Other mutations in this stock

Total: 51 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
4930474N05Rik	A	T	14: 35,818,657 (GRCm39)	K218N	probably benign	Het
Acot11	T	C	4: 106,619,652 (GRCm39)	E156G	probably benign	Het
Arhgef28	A	T	13: 98,094,224 (GRCm39)	N973K	probably damaging	Het
B4galt3	T	C	1: 171,101,821 (GRCm39)		probably benign	Het
Bmpr1a	T	C	14: 34,165,769 (GRCm39)		probably benign	Het
Camkmt	A	T	17: 85,702,087 (GRCm39)	I184F	probably benign	Het
Ccdc33	T	C	9: 58,024,737 (GRCm39)	Y163C	probably damaging	Het
Ccdc9	A	G	7: 16,014,701 (GRCm39)		probably benign	Het
Dars2	A	T	1: 160,888,318 (GRCm39)	C201S	possibly damaging	Het
Dnajc1	A	T	2: 18,312,767 (GRCm39)	S194R	possibly damaging	Het
Dock8	A	G	19: 25,148,941 (GRCm39)	D1473G	probably benign	Het
Dpm2	T	A	2: 32,462,961 (GRCm39)		probably null	Het
Dsg4	T	C	18: 20,591,628 (GRCm39)	S456P	probably damaging	Het
Gys1	T	C	7: 45,089,425 (GRCm39)	S195P	probably damaging	Het
Heatr6	G	T	11: 83,670,290 (GRCm39)	E948*	probably null	Het
Itgal	G	A	7: 126,910,445 (GRCm39)	R518Q	possibly damaging	Het
Klhdc8b	G	C	9: 108,326,422 (GRCm39)	R158G	possibly damaging	Het
Klhl41	G	A	2: 69,500,554 (GRCm39)	R5Q	probably benign	Het
Lrrtm4	A	T	6: 79,999,103 (GRCm39)	T172S	probably benign	Het
Mei1	T	C	15: 81,975,562 (GRCm39)	F121S	possibly damaging	Het
Mtor	C	T	4: 148,622,817 (GRCm39)	R1966W	probably damaging	Het
Myh7	A	G	14: 55,228,256 (GRCm39)	F247L	possibly damaging	Het
Nebl	G	T	2: 17,409,026 (GRCm39)	D392E	possibly damaging	Het
Notch2	C	A	3: 98,024,057 (GRCm39)	N840K	possibly damaging	Het
Nubp1	T	C	16: 10,240,678 (GRCm39)		probably benign	Het
Or5w16	A	T	2: 87,577,017 (GRCm39)	Q159L	probably benign	Het
Or7g19	T	C	9: 18,856,444 (GRCm39)	S167P	probably damaging	Het
Pcdh17	T	A	14: 84,684,897 (GRCm39)	S455T	probably damaging	Het
Picalm	C	A	7: 89,779,876 (GRCm39)	H32Q	probably benign	Het
Pold1	T	C	7: 44,184,516 (GRCm39)	E828G	probably damaging	Het
Ptpro	T	A	6: 137,420,592 (GRCm39)	V1007D	probably damaging	Het
Rala	A	T	13: 18,063,233 (GRCm39)	N119K	probably benign	Het
Rasal2	A	T	1: 156,975,362 (GRCm39)	V1149E	possibly damaging	Het
Rd3	A	G	1: 191,715,501 (GRCm39)	Y92C	probably damaging	Het
Rps18-ps6	A	T	13: 97,897,071 (GRCm39)	F9Y	probably benign	Het
Sart1	A	T	19: 5,431,752 (GRCm39)	D635E	probably damaging	Het
Sec16b	A	G	1: 157,365,116 (GRCm39)	T335A	possibly damaging	Het
Slc11a2	C	T	15: 100,303,679 (GRCm39)	G185R	probably damaging	Het
Slc2a12	G	A	10: 22,540,967 (GRCm39)	R274H	probably damaging	Het
Spag17	T	C	3: 100,032,618 (GRCm39)	V2276A	probably damaging	Het
Tcam1	G	A	11: 106,174,904 (GRCm39)	E120K	probably benign	Het
Tenm2	T	C	11: 36,054,557 (GRCm39)	D601G	probably damaging	Het
Tmem168	C	A	6: 13,603,360 (GRCm39)	C2F	probably damaging	Het
Tmem80	A	G	7: 140,913,609 (GRCm39)	Y13C	probably damaging	Het
Try4	T	A	6: 41,281,296 (GRCm39)	N79K	probably benign	Het
Vldlr	C	A	19: 27,225,318 (GRCm39)	N798K	probably damaging	Het
Wdr41	A	G	13: 95,131,813 (GRCm39)		probably benign	Het
Zfp30	A	T	7: 29,492,160 (GRCm39)	E138V	probably damaging	Het
Zfp366	A	C	13: 99,365,786 (GRCm39)	T316P	probably damaging	Het
Zfp563	A	T	17: 33,323,659 (GRCm39)	S85C	possibly damaging	Het
Znfx1	T	C	2: 166,883,621 (GRCm39)	H162R	probably damaging	Het

Other mutations in Lypd1

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
H8562:Lypd1	UTSW	1	125,838,274 (GRCm39)	splice site	probably benign
R0015:Lypd1	UTSW	1	125,838,175 (GRCm39)	missense	possibly damaging	0.59
R1838:Lypd1	UTSW	1	125,801,108 (GRCm39)	unclassified	probably benign
R2045:Lypd1	UTSW	1	125,838,272 (GRCm39)	splice site	probably benign
R3757:Lypd1	UTSW	1	125,838,121 (GRCm39)	splice site	probably benign
R6906:Lypd1	UTSW	1	125,838,196 (GRCm39)	missense	probably damaging	0.99
R7453:Lypd1	UTSW	1	125,801,303 (GRCm39)	missense	probably benign
R8916:Lypd1	UTSW	1	125,801,120 (GRCm39)	missense	unknown

Predicted Primers

PCR Primer
(F):5'- GCTGTTTCTGAGCACCTGGCAAAG -3'
(R):5'- GGTTTCCACCGAATCTCCCAAATCC -3'

Sequencing Primer
(F):5'- CACCTGGCAAAGTTGCG -3'
(R):5'- TACGCAAGGTGGGTCACTTAG -3'

Posted On

2013-06-12