Mutagenetix > Incidental Mutations

Incidental Mutation 'R3552:Lrrc4c'

268973

Institutional Source

Beutler Lab

Gene Symbol

Lrrc4c

Ensembl Gene

ENSMUSG00000050587

Gene Name

leucine rich repeat containing 4C

Synonyms

netrin g1 ligand, 6430556C10Rik

MMRRC Submission

040669-MU

Accession Numbers

Is this an essential gene?

Probably non essential (E-score: 0.136) question?

Stock #

R3552 (G1)

Quality Score

225

Status

Validated

Chromosome

Chromosomal Location

96318169-97631666 bp(+) (GRCm38)

Type of Mutation

missense

DNA Base Change (assembly)

T to A at 97629961 bp (GRCm38)

Zygosity

Heterozygous

Amino Acid Change

Tryptophan to Arginine at position 311 (W311R)

Ref Sequence

ENSEMBL: ENSMUSP00000125218 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000059049] [ENSMUST00000135431] [ENSMUST00000162807] [ENSMUST00000170144]

AlphaFold

Q8C031

Predicted Effect

probably damaging
Transcript: ENSMUST00000059049
AA Change: W311R

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

SMART Domains

Protein: ENSMUSP00000131795
Gene: ENSMUSG00000050587
AA Change: W311R

Domain	Start	End	E-Value	Type
low complexity region	26	42	N/A	INTRINSIC
LRRNT	46	80	6.95e-4	SMART
LRR	79	98	1.97e2	SMART
LRR_TYP	99	122	7.37e-4	SMART
LRR	123	146	1.08e-1	SMART
LRR_TYP	147	170	1.38e-3	SMART
Blast:LRR	171	195	5e-8	BLAST
LRR	196	217	8.03e1	SMART
LRR_TYP	218	241	2.12e-4	SMART
LRR	242	265	6.97e1	SMART
LRR_TYP	266	289	2.53e-2	SMART
LRRCT	301	352	2.68e-2	SMART
IGc2	366	433	1.22e-7	SMART
transmembrane domain	526	548	N/A	INTRINSIC

Predicted Effect

probably damaging
Transcript: ENSMUST00000135431
AA Change: W311R

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

SMART Domains

Protein: ENSMUSP00000130984
Gene: ENSMUSG00000050587
AA Change: W311R

Domain	Start	End	E-Value	Type
low complexity region	26	42	N/A	INTRINSIC
LRRNT	46	80	6.95e-4	SMART
LRR	79	98	1.97e2	SMART
LRR_TYP	99	122	7.37e-4	SMART
LRR	123	146	1.08e-1	SMART
LRR_TYP	147	170	1.38e-3	SMART
Blast:LRR	171	195	5e-8	BLAST
LRR	196	217	8.03e1	SMART
LRR_TYP	218	241	2.12e-4	SMART
LRR	242	265	6.97e1	SMART
LRR_TYP	266	289	2.53e-2	SMART
LRRCT	301	352	2.68e-2	SMART
IGc2	366	433	1.22e-7	SMART
transmembrane domain	526	548	N/A	INTRINSIC

Predicted Effect

probably damaging
Transcript: ENSMUST00000162807
AA Change: W311R

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

SMART Domains

Protein: ENSMUSP00000125218
Gene: ENSMUSG00000050587
AA Change: W311R

Domain	Start	End	E-Value	Type
low complexity region	26	42	N/A	INTRINSIC
LRRNT	46	80	6.95e-4	SMART
LRR	79	98	1.97e2	SMART
LRR_TYP	99	122	7.37e-4	SMART
LRR	123	146	1.08e-1	SMART
LRR_TYP	147	170	1.38e-3	SMART
Blast:LRR	171	195	5e-8	BLAST
LRR	196	217	8.03e1	SMART
LRR_TYP	218	241	2.12e-4	SMART
LRR	242	265	6.97e1	SMART
LRR_TYP	266	289	2.53e-2	SMART
LRRCT	301	352	2.68e-2	SMART
IGc2	366	433	1.22e-7	SMART
transmembrane domain	526	548	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000170144

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000199276

Meta Mutation Damage Score

0.9510

Coding Region Coverage

1x: 99.3%
3x: 98.5%
10x: 96.8%
20x: 93.4%

Validation Efficiency

100% (66/66)

MGI Phenotype

FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] NGL1 is a specific binding partner for netrin G1 (NTNG1; MIM 608818), which is a member of the netrin family of axon guidance molecules (Lin et al., 2003 [PubMed 14595443]).[supplied by OMIM, Mar 2008]
PHENOTYPE: Homozygous mutant mice exhibited an increased mean serum IL-6 response to LPS challenge when compared with controls. No other notable phenotype was detected in a high-througput screen. [provided by MGI curators]

Allele List at MGI

Other mutations in this stock

Total: 63 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
0610009O20Rik	A	G	18: 38,258,365		probably benign	Het
Acaca	T	A	11: 84,261,624	Y866N	probably damaging	Het
Agk	A	G	6: 40,394,681	T371A	probably benign	Het
Akna	T	C	4: 63,398,124	M1V	probably null	Het
Aldh7a1	T	C	18: 56,550,292		probably null	Het
Ankrd26	A	T	6: 118,507,776	L1500H	probably damaging	Het
Atp13a5	T	A	16: 29,310,766	D452V	probably damaging	Het
Bahcc1	C	T	11: 120,276,772	T1333M	possibly damaging	Het
Carmil3	G	T	14: 55,507,402	R1276L	possibly damaging	Het
Ccni	T	C	5: 93,187,761	S173G	probably benign	Het
Chrm2	A	T	6: 36,523,810	I201F	probably damaging	Het
Col16a1	A	G	4: 130,077,041	T618A	probably benign	Het
Dock2	T	C	11: 34,720,960	Y192C	probably benign	Het
Ep400	T	A	5: 110,729,287	E821V	unknown	Het
Esrrg	G	A	1: 188,150,190	V215I	probably benign	Het
Evx1	A	T	6: 52,316,923	S359C	probably damaging	Het
Fcrls	A	G	3: 87,259,410	I92T	possibly damaging	Het
Gal3st1	T	A	11: 3,998,110	F106I	possibly damaging	Het
Gm9944	T	C	4: 144,453,043		probably benign	Het
Hjurp	GT	GTT	1: 88,266,524		probably null	Het
Hrc	G	C	7: 45,336,333	E303Q	possibly damaging	Het
Kcnh1	A	G	1: 192,238,766	N118D	probably damaging	Het
Khdrbs1	A	G	4: 129,720,791	I323T	possibly damaging	Het
Klhdc7b	T	C	15: 89,387,521	Y869H	probably benign	Het
Megf11	A	G	9: 64,695,463	D862G	possibly damaging	Het
Muc5b	A	G	7: 141,861,335	T2673A	possibly damaging	Het
Muc5b	A	G	7: 141,867,705	S4311G	probably benign	Het
Myo15	C	T	11: 60,509,663	A1767V	possibly damaging	Het
Neo1	T	A	9: 58,893,878	K1140M	probably damaging	Het
Oc90	T	C	15: 65,878,801	Q365R	possibly damaging	Het
Olfr1012	T	C	2: 85,759,893	N161S	possibly damaging	Het
Olfr378	T	C	11: 73,425,852	I44V	probably benign	Het
Olfr48	A	C	2: 89,844,343	M210R	possibly damaging	Het
Oplah	C	T	15: 76,302,094	D734N	possibly damaging	Het
Pbx1	G	A	1: 168,158,793	P411L	possibly damaging	Het
Pcdhga6	G	T	18: 37,708,217	R330L	probably benign	Het
Phox2b	C	A	5: 67,097,656	R150L	probably damaging	Het
Plscr2	A	G	9: 92,290,795	E169G	probably damaging	Het
Ptprn2	A	T	12: 116,888,877	Q518L	probably benign	Het
Rbl1	A	T	2: 157,195,585	I214K	probably benign	Het
Ryr1	T	A	7: 29,056,997	Q3464L	probably damaging	Het
Ryr3	T	A	2: 112,751,787	I2854F	probably damaging	Het
Shtn1	T	C	19: 58,975,038	Y615C	probably benign	Het
Sirt5	A	T	13: 43,383,167	N226Y	probably damaging	Het
Slc30a3	G	A	5: 31,095,078		probably benign	Het
Slc5a4b	A	G	10: 76,081,524	V226A	probably damaging	Het
Slf2	C	A	19: 44,934,951	S68*	probably null	Het
Smyd5	G	A	6: 85,442,211	E292K	probably damaging	Het
Spns1	A	G	7: 126,370,371	V512A	possibly damaging	Het
Sry	T	A	Y: 2,663,141	Q173L	unknown	Het
Ssrp1	C	A	2: 85,044,392	Q519K	probably benign	Het
Tgfbr3	T	C	5: 107,139,839	E498G	probably damaging	Het
Tnrc6b	T	G	15: 80,880,247	L650W	probably damaging	Het
Tnxb	A	T	17: 34,718,721	E3861D	probably damaging	Het
Trbc1	G	T	6: 41,539,645		probably benign	Het
Trpm7	T	A	2: 126,826,710		probably benign	Het
Usp39	G	A	6: 72,337,832	T197I	possibly damaging	Het
Vmn1r38	T	C	6: 66,776,493	H213R	possibly damaging	Het
Washc2	A	G	6: 116,220,568	D168G	probably damaging	Het
Washc4	A	G	10: 83,546,856	I45V	probably benign	Het
Zfp352	A	G	4: 90,225,102	E493G	probably benign	Het
Zfp692	C	T	11: 58,309,428	T170I	possibly damaging	Het
Zfp735	C	A	11: 73,711,241	S337*	probably null	Het

Other mutations in Lrrc4c

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL00482:Lrrc4c	APN	2	97630385	nonsense	probably null
IGL02095:Lrrc4c	APN	2	97629404	missense	probably benign	0.05
IGL02165:Lrrc4c	APN	2	97629033	start codon destroyed	probably null	0.33
IGL02176:Lrrc4c	APN	2	97630253	missense	probably damaging	0.96
IGL02674:Lrrc4c	APN	2	97629775	missense	probably damaging	0.99
IGL03082:Lrrc4c	APN	2	97630586	missense	probably benign	0.05
IGL03303:Lrrc4c	APN	2	97629592	missense	probably damaging	1.00
R0946:Lrrc4c	UTSW	2	97629464	missense	probably benign	0.00
R1037:Lrrc4c	UTSW	2	97629985	missense	probably benign
R1518:Lrrc4c	UTSW	2	97630576	missense	probably benign
R1559:Lrrc4c	UTSW	2	97630772	missense	probably benign	0.00
R2192:Lrrc4c	UTSW	2	97629312	missense	possibly damaging	0.50
R2213:Lrrc4c	UTSW	2	97630471	missense	probably benign	0.29
R2279:Lrrc4c	UTSW	2	97630505	missense	possibly damaging	0.86
R3840:Lrrc4c	UTSW	2	97630192	missense	probably damaging	0.98
R3841:Lrrc4c	UTSW	2	97630192	missense	probably damaging	0.98
R4606:Lrrc4c	UTSW	2	97630313	missense	probably benign	0.22
R4938:Lrrc4c	UTSW	2	97629301	missense	probably damaging	1.00
R4946:Lrrc4c	UTSW	2	97630489	missense	probably benign	0.00
R5323:Lrrc4c	UTSW	2	97630153	missense	probably damaging	1.00
R6014:Lrrc4c	UTSW	2	97629212	splice site	probably null
R6297:Lrrc4c	UTSW	2	97629619	missense	probably damaging	0.99
R6376:Lrrc4c	UTSW	2	97629046	missense	probably benign	0.03
R7032:Lrrc4c	UTSW	2	97629065	missense	probably benign
R7419:Lrrc4c	UTSW	2	97629761	missense	probably benign	0.07
R7699:Lrrc4c	UTSW	2	97630679	missense	possibly damaging	0.81
R7700:Lrrc4c	UTSW	2	97630679	missense	possibly damaging	0.81
R7723:Lrrc4c	UTSW	2	97630654	missense	possibly damaging	0.91
R7736:Lrrc4c	UTSW	2	97630360	missense	probably benign	0.02
R7843:Lrrc4c	UTSW	2	97630213	missense	probably benign	0.19
R7880:Lrrc4c	UTSW	2	97630798	missense	probably benign	0.08
R8008:Lrrc4c	UTSW	2	97630249	missense	possibly damaging	0.88
R8479:Lrrc4c	UTSW	2	97629632	missense	probably damaging	1.00
R8802:Lrrc4c	UTSW	2	97630258	missense	possibly damaging	0.83
R8821:Lrrc4c	UTSW	2	97629695	missense	possibly damaging	0.88
R8906:Lrrc4c	UTSW	2	97630048	missense	probably benign	0.00
R8933:Lrrc4c	UTSW	2	97629481	missense	probably benign	0.36
R8974:Lrrc4c	UTSW	2	97629647	missense	probably damaging	1.00
R9115:Lrrc4c	UTSW	2	97629341	missense	probably benign	0.00
R9266:Lrrc4c	UTSW	2	97629508	missense	probably benign	0.26
R9311:Lrrc4c	UTSW	2	97630735	missense	possibly damaging	0.90
Z1177:Lrrc4c	UTSW	2	97630483	nonsense	probably null

Predicted Primers

PCR Primer
(F):5'- AATCAGGCCTGGCTCTTTTC -3'
(R):5'- AGTGACATTGAGGTCTGCAGG -3'

Sequencing Primer
(F):5'- GGGTTGATGCACCTTCAAAAACTG -3'
(R):5'- TGCAGGGGGCTCCACAATTAC -3'

Posted On

2015-02-19