Mutagenetix > Incidental Mutation

Incidental Mutation 'R1987:Lrrn4'

222604

Institutional Source

Beutler Lab

Gene Symbol

Lrrn4

Ensembl Gene

ENSMUSG00000043110

Gene Name

leucine rich repeat neuronal 4

Synonyms

B430119L13Rik

MMRRC Submission

039999-MU

Accession Numbers

Essential gene?

Probably non essential (E-score: 0.061) question?

Stock #

R1987 (G1)

Quality Score

225

Status

Not validated

Chromosome

Chromosomal Location

132868305-132880891 bp(-) (GRCm38)

Type of Mutation

missense

DNA Base Change (assembly)

T to C at 132870443 bp (GRCm38)

Zygosity

Heterozygous

Amino Acid Change

Threonine to Alanine at position 487 (T487A)

Ref Sequence

ENSEMBL: ENSMUSP00000057005 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000028835] [ENSMUST00000049787] [ENSMUST00000124834] [ENSMUST00000124836] [ENSMUST00000154160]

AlphaFold

P59383

Predicted Effect

probably benign
Transcript: ENSMUST00000028835

SMART Domains

Protein: ENSMUSP00000028835
Gene: ENSMUSG00000027357

Domain	Start	End	E-Value	Type
low complexity region	17	46	N/A	INTRINSIC
low complexity region	71	93	N/A	INTRINSIC
Pfam:CDP-OH_P_transf	107	288	1.5e-15	PFAM

Predicted Effect

probably benign
Transcript: ENSMUST00000049787
AA Change: T487A

PolyPhen 2 Score 0.022 (Sensitivity: 0.95; Specificity: 0.81)

SMART Domains

Protein: ENSMUSP00000057005
Gene: ENSMUSG00000043110
AA Change: T487A

Domain	Start	End	E-Value	Type
signal peptide	1	21	N/A	INTRINSIC
LRR	105	126	7.36e0	SMART
LRR_TYP	128	151	3.44e-4	SMART
LRR	153	175	1.19e1	SMART
LRR	176	199	1.53e1	SMART
LRR	205	228	2.03e1	SMART
LRR	229	253	3.36e2	SMART
LRRCT	311	363	6.92e-2	SMART
low complexity region	520	530	N/A	INTRINSIC
FN3	577	656	3.73e-10	SMART
transmembrane domain	679	701	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000124834

SMART Domains

Protein: ENSMUSP00000129509
Gene: ENSMUSG00000027357

Domain	Start	End	E-Value	Type
low complexity region	17	46	N/A	INTRINSIC
low complexity region	71	93	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000124836

SMART Domains

Protein: ENSMUSP00000132682
Gene: ENSMUSG00000027357

Domain	Start	End	E-Value	Type
Pfam:CDP-OH_P_transf	1	175	1.6e-12	PFAM

Predicted Effect

probably benign
Transcript: ENSMUST00000154160

SMART Domains

Protein: ENSMUSP00000129137
Gene: ENSMUSG00000027357

Domain	Start	End	E-Value	Type
Pfam:CDP-OH_P_transf	7	187	1.8e-15	PFAM

Coding Region Coverage

1x: 99.2%
3x: 98.4%
10x: 96.4%
20x: 92.6%

Validation Efficiency

MGI Phenotype

PHENOTYPE: Homozygous null mutant mice exhibit impaired memory retention in hippocampus- dependent learning tasks such as contextual conditioning and spatial learning. [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
2610507B11Rik	A	T	11: 78,268,167 (GRCm38)	Q433L	probably damaging	Het
4932438A13Rik	T	A	3: 36,953,985 (GRCm38)		probably null	Het
Ahnak	A	T	19: 9,015,251 (GRCm38)	D4633V	probably damaging	Het
Akap6	T	C	12: 53,140,795 (GRCm38)	F1664S	possibly damaging	Het
Arhgef28	T	C	13: 97,967,096 (GRCm38)	M803V	probably benign	Het
BC117090	C	A	16: 36,321,832 (GRCm38)	G61C	probably damaging	Het
Ccdc73	T	A	2: 104,931,045 (GRCm38)	L130*	probably null	Het
Ccdc73	A	G	2: 104,999,159 (GRCm38)	E1059G	probably damaging	Het
Ccer2	A	C	7: 28,757,283 (GRCm38)	S151R	possibly damaging	Het
Cep128	T	A	12: 91,230,829 (GRCm38)	H406L	probably benign	Het
Cep135	A	G	5: 76,597,428 (GRCm38)	D229G	probably benign	Het
Cpvl	T	A	6: 53,954,611 (GRCm38)	D103V	probably benign	Het
Disp3	G	A	4: 148,258,753 (GRCm38)	A567V	probably damaging	Het
Dnah5	T	C	15: 28,343,591 (GRCm38)	I2379T	probably damaging	Het
Dnah6	T	C	6: 73,095,044 (GRCm38)	Y2433C	probably damaging	Het
Dock3	A	G	9: 107,108,421 (GRCm38)	I85T	probably benign	Het
Dock9	A	C	14: 121,591,830 (GRCm38)	S1380A	probably benign	Het
Erbin	T	C	13: 103,886,203 (GRCm38)	T43A	probably benign	Het
Fastkd3	T	C	13: 68,585,241 (GRCm38)	V502A	possibly damaging	Het
Fn1	T	C	1: 71,651,625 (GRCm38)	H59R	probably damaging	Het
Fsd2	A	G	7: 81,559,659 (GRCm38)	V145A	possibly damaging	Het
Fzr1	A	G	10: 81,370,319 (GRCm38)	V178A	probably damaging	Het
Gnpnat1	T	C	14: 45,380,998 (GRCm38)	R116G	probably damaging	Het
Grm7	T	A	6: 110,914,511 (GRCm38)	V235E	probably damaging	Het
Hdac4	A	C	1: 91,934,645 (GRCm38)	N1002K	probably damaging	Het
Hey1	C	T	3: 8,664,897 (GRCm38)	A167T	probably benign	Het
Hrnr	A	G	3: 93,332,604 (GRCm38)	N3383S	unknown	Het
Ints2	A	T	11: 86,217,800 (GRCm38)	V907D	probably benign	Het
Ispd	T	A	12: 36,521,996 (GRCm38)	L301Q	probably damaging	Het
Jchain	T	A	5: 88,521,467 (GRCm38)	Q109L	probably damaging	Het
Klhdc7a	A	T	4: 139,966,024 (GRCm38)	Y537*	probably null	Het
Klra1	C	T	6: 130,377,779 (GRCm38)	S92N	probably benign	Het
Krt31	C	T	11: 100,049,580 (GRCm38)	G150S	probably benign	Het
Lrrc71	G	A	3: 87,742,643 (GRCm38)	T326M	probably benign	Het
Map4k5	T	G	12: 69,842,912 (GRCm38)	R198S	probably damaging	Het
Men1	G	A	19: 6,338,837 (GRCm38)	C354Y	probably damaging	Het
Ms4a18	A	T	19: 11,013,655 (GRCm38)	V25E	probably damaging	Het
Mutyh	T	A	4: 116,819,368 (GRCm38)	S512R	possibly damaging	Het
Myh10	G	T	11: 68,814,496 (GRCm38)	A1947S	possibly damaging	Het
Nfasc	T	C	1: 132,610,886 (GRCm38)	D427G	probably damaging	Het
Nlrp9c	A	G	7: 26,378,056 (GRCm38)	M767T	probably benign	Het
Nrbp1	T	C	5: 31,245,391 (GRCm38)	L185P	probably damaging	Het
Pcdh9	G	A	14: 93,888,305 (GRCm38)	P143L	probably damaging	Het
Pcsk6	A	T	7: 65,927,287 (GRCm38)	M158L	possibly damaging	Het
Pkd1	G	T	17: 24,576,592 (GRCm38)		probably null	Het
Plk4	A	T	3: 40,805,817 (GRCm38)	S383C	possibly damaging	Het
Plxna2	T	C	1: 194,643,989 (GRCm38)	L77P	probably damaging	Het
Pnpla6	A	T	8: 3,542,370 (GRCm38)	T1209S	probably benign	Het
Prdm2	A	G	4: 143,132,509 (GRCm38)	S1404P	possibly damaging	Het
Preb	T	C	5: 30,958,813 (GRCm38)	D150G	probably damaging	Het
Prrt2	A	G	7: 127,018,730 (GRCm38)	V59A	probably benign	Het
Prss40	T	C	1: 34,558,014 (GRCm38)	N151S	possibly damaging	Het
Ptprt	G	T	2: 161,558,898 (GRCm38)	A1053D	probably damaging	Het
Ptprt	A	G	2: 161,766,321 (GRCm38)	V685A	possibly damaging	Het
Rfx4	C	T	10: 84,896,088 (GRCm38)	S549F	possibly damaging	Het
Rnaset2b	T	A	17: 6,996,477 (GRCm38)	V87E	probably benign	Het
Rnf213	G	A	11: 119,441,107 (GRCm38)	E2381K	probably damaging	Het
Sectm1a	A	T	11: 121,069,680 (GRCm38)	I103N	probably damaging	Het
Selp	T	A	1: 164,142,758 (GRCm38)	L597Q	probably damaging	Het
Sema6a	T	C	18: 47,300,142 (GRCm38)	D74G	probably damaging	Het
Serpinb9b	T	C	13: 33,029,559 (GRCm38)	V33A	probably benign	Het
Setd1b	A	T	5: 123,147,706 (GRCm38)	T272S	unknown	Het
Sgf29	G	C	7: 126,649,477 (GRCm38)		probably null	Het
Slc4a10	C	A	2: 62,268,204 (GRCm38)	Q561K	probably damaging	Het
Slc4a5	T	C	6: 83,273,232 (GRCm38)	I649T	possibly damaging	Het
Slc5a7	A	G	17: 54,293,835 (GRCm38)	Y91H	probably damaging	Het
Styxl1	T	C	5: 135,757,122 (GRCm38)	Y23C	probably damaging	Het
Tbc1d24	A	G	17: 24,206,872 (GRCm38)	V490A	possibly damaging	Het
Tbpl2	A	T	2: 24,094,732 (GRCm38)	F133L	probably benign	Het
Tcrg-C3	C	A	13: 19,260,994 (GRCm38)	F37L	probably damaging	Het
Tnfrsf22	T	C	7: 143,638,389 (GRCm38)		probably benign	Het
Top2b	A	G	14: 16,398,916 (GRCm38)	E512G	probably damaging	Het
Ttc17	T	A	2: 94,364,345 (GRCm38)	H561L	probably benign	Het
Ttll4	G	T	1: 74,685,368 (GRCm38)	V566L	possibly damaging	Het
Ubqlnl	A	G	7: 104,148,485 (GRCm38)	Y602H	probably benign	Het
Vmn1r231	T	A	17: 20,889,950 (GRCm38)	E234D	probably damaging	Het
Wbp11	A	G	6: 136,820,585 (GRCm38)	S279P	probably damaging	Het
Wdr6	A	G	9: 108,576,534 (GRCm38)	L50P	probably damaging	Het
Zfp715	A	C	7: 43,298,649 (GRCm38)	I629S	possibly damaging	Het

Other mutations in Lrrn4

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL00333:Lrrn4	APN	2	132,870,817 (GRCm38)	missense	probably damaging	1.00
IGL00661:Lrrn4	APN	2	132,870,668 (GRCm38)	missense	probably benign	0.08
IGL01542:Lrrn4	APN	2	132,879,472 (GRCm38)	missense	probably benign
IGL01584:Lrrn4	APN	2	132,878,076 (GRCm38)	missense	probably damaging	1.00
IGL01723:Lrrn4	APN	2	132,870,061 (GRCm38)	missense	possibly damaging	0.79
R0270:Lrrn4	UTSW	2	132,870,719 (GRCm38)	missense	probably benign	0.01
R0348:Lrrn4	UTSW	2	132,870,443 (GRCm38)	missense	probably benign	0.02
R0400:Lrrn4	UTSW	2	132,878,020 (GRCm38)	missense	probably benign	0.12
R0701:Lrrn4	UTSW	2	132,870,160 (GRCm38)	missense	probably benign	0.02
R1465:Lrrn4	UTSW	2	132,872,075 (GRCm38)	missense	probably damaging	1.00
R1465:Lrrn4	UTSW	2	132,872,075 (GRCm38)	missense	probably damaging	1.00
R1664:Lrrn4	UTSW	2	132,869,966 (GRCm38)	missense	probably damaging	1.00
R3409:Lrrn4	UTSW	2	132,879,861 (GRCm38)	missense	unknown
R3743:Lrrn4	UTSW	2	132,869,866 (GRCm38)	splice site	probably null
R4678:Lrrn4	UTSW	2	132,879,568 (GRCm38)	missense	probably benign	0.16
R5770:Lrrn4	UTSW	2	132,872,156 (GRCm38)	missense	probably damaging	1.00
R6438:Lrrn4	UTSW	2	132,870,142 (GRCm38)	missense	probably damaging	1.00
R6511:Lrrn4	UTSW	2	132,870,326 (GRCm38)	missense	probably benign	0.06
R6880:Lrrn4	UTSW	2	132,872,112 (GRCm38)	missense	probably damaging	0.96
R7132:Lrrn4	UTSW	2	132,879,693 (GRCm38)	nonsense	probably null
R7273:Lrrn4	UTSW	2	132,879,829 (GRCm38)	missense	unknown
R7424:Lrrn4	UTSW	2	132,869,743 (GRCm38)	missense	possibly damaging	0.90
R7710:Lrrn4	UTSW	2	132,879,531 (GRCm38)	missense	probably benign	0.00
R7980:Lrrn4	UTSW	2	132,878,176 (GRCm38)	missense	probably damaging	1.00
R8133:Lrrn4	UTSW	2	132,878,014 (GRCm38)	missense	probably damaging	1.00
R8229:Lrrn4	UTSW	2	132,869,887 (GRCm38)	missense	probably damaging	1.00
R8489:Lrrn4	UTSW	2	132,879,444 (GRCm38)	missense	probably benign	0.20
R8956:Lrrn4	UTSW	2	132,872,091 (GRCm38)	missense	probably damaging	1.00
R9337:Lrrn4	UTSW	2	132,870,632 (GRCm38)	missense	probably benign	0.11
R9342:Lrrn4	UTSW	2	132,870,370 (GRCm38)	missense	probably benign

Predicted Primers

PCR Primer
(F):5'- ATTCACAAGAGACGTCCTGG -3'
(R):5'- TTGAACAGAGCACGGCCTTG -3'

Sequencing Primer
(F):5'- CAAGAGACGTCCTGGGGAGG -3'
(R):5'- CTTGTCTGCTCAGCCTGGAG -3'

Posted On

2014-08-25