Mutagenetix > Incidental Mutation

Incidental Mutation 'R1473:Lrig1'

165917

Institutional Source

Beutler Lab

Gene Symbol

Lrig1

Ensembl Gene

ENSMUSG00000030029

Gene Name

leucine-rich repeats and immunoglobulin-like domains 1

Synonyms

LIG-1, Img

MMRRC Submission

039526-MU

Accession Numbers

Genbank: NM_008377; MGI: 107935

Is this an essential gene?

Non essential (E-score: 0.000) question?

Stock #

R1473 (G1)

Quality Score

225

Status

Validated

Chromosome

Chromosomal Location

94604529-94700158 bp(-) (GRCm38)

Type of Mutation

missense

DNA Base Change (assembly)

T to A at 94607313 bp (GRCm38)

Zygosity

Heterozygous

Amino Acid Change

Threonine to Serine at position 917 (T917S)

Ref Sequence

ENSEMBL: ENSMUSP00000144963 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000032105] [ENSMUST00000061118] [ENSMUST00000101126] [ENSMUST00000204235] [ENSMUST00000204645] [ENSMUST00000204764]

AlphaFold

P70193

Predicted Effect

probably benign
Transcript: ENSMUST00000032105
AA Change: T917S

PolyPhen 2 Score 0.161 (Sensitivity: 0.92; Specificity: 0.87)

SMART Domains

Protein: ENSMUSP00000032105
Gene: ENSMUSG00000030029
AA Change: T917S

Domain	Start	End	E-Value	Type
signal peptide	1	34	N/A	INTRINSIC
LRRNT	42	74	5.82e-6	SMART
LRR	68	92	4.83e0	SMART
LRR	93	115	9.96e-1	SMART
LRR	142	163	6.22e0	SMART
LRR	166	187	1.81e1	SMART
LRR	190	212	5.72e0	SMART
LRR	213	235	1.06e1	SMART
LRR_TYP	236	259	2.79e-4	SMART
LRR	260	283	2.54e1	SMART
LRR	284	307	9.96e-1	SMART
LRR	308	331	4.21e1	SMART
LRR_TYP	332	355	8.6e-5	SMART
LRR	356	382	1.06e1	SMART
LRR	383	406	9.96e-1	SMART
LRR_TYP	407	430	3.34e-2	SMART
LRRCT	442	492	3.5e-15	SMART
IGc2	509	586	1.34e-4	SMART
IGc2	613	681	2.87e-13	SMART
IGc2	707	772	6.44e-16	SMART

Predicted Effect

probably benign
Transcript: ENSMUST00000061118

SMART Domains

Protein: ENSMUSP00000058028
Gene: ENSMUSG00000045100

Domain	Start	End	E-Value	Type
Pfam:Mito_carr	2	82	7e-14	PFAM
Pfam:Mito_carr	84	173	4e-16	PFAM
Pfam:Mito_carr	176	269	2.8e-22	PFAM

Predicted Effect

probably benign
Transcript: ENSMUST00000101126
AA Change: T917S

PolyPhen 2 Score 0.161 (Sensitivity: 0.92; Specificity: 0.87)

SMART Domains

Protein: ENSMUSP00000098686
Gene: ENSMUSG00000030029
AA Change: T917S

Domain	Start	End	E-Value	Type
signal peptide	1	34	N/A	INTRINSIC
LRRNT	42	74	5.82e-6	SMART
LRR	68	92	4.83e0	SMART
LRR	93	115	9.96e-1	SMART
LRR	142	163	6.22e0	SMART
LRR	166	187	1.81e1	SMART
LRR	190	212	5.72e0	SMART
LRR	213	235	1.06e1	SMART
LRR_TYP	236	259	2.79e-4	SMART
LRR	260	283	2.54e1	SMART
LRR	284	307	9.96e-1	SMART
LRR	308	331	4.21e1	SMART
LRR_TYP	332	355	8.6e-5	SMART
LRR	356	382	1.06e1	SMART
LRR	383	406	9.96e-1	SMART
LRR_TYP	407	430	3.34e-2	SMART
LRRCT	442	492	3.5e-15	SMART
IGc2	509	586	1.34e-4	SMART
IGc2	613	681	2.87e-13	SMART
IGc2	707	772	6.44e-16	SMART

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000183891

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000203484

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000203876

Predicted Effect

probably benign
Transcript: ENSMUST00000204235

SMART Domains

Protein: ENSMUSP00000145328
Gene: ENSMUSG00000045100

Domain	Start	End	E-Value	Type
Pfam:Mito_carr	2	43	2.7e-7	PFAM
Pfam:Mito_carr	38	82	8.2e-6	PFAM

Predicted Effect

probably benign
Transcript: ENSMUST00000204645
AA Change: T917S

PolyPhen 2 Score 0.161 (Sensitivity: 0.92; Specificity: 0.87)

SMART Domains

Protein: ENSMUSP00000144963
Gene: ENSMUSG00000030029
AA Change: T917S

Domain	Start	End	E-Value	Type
signal peptide	1	34	N/A	INTRINSIC
LRRNT	42	74	5.82e-6	SMART
LRR	68	92	4.83e0	SMART
LRR	93	115	9.96e-1	SMART
LRR	142	163	6.22e0	SMART
LRR	166	187	1.81e1	SMART
LRR	190	212	5.72e0	SMART
LRR	213	235	1.06e1	SMART
LRR_TYP	236	259	2.79e-4	SMART
LRR	260	283	2.54e1	SMART
LRR	284	307	9.96e-1	SMART
LRR	308	331	4.21e1	SMART
LRR_TYP	332	355	8.6e-5	SMART
LRR	356	382	1.06e1	SMART
LRR	383	406	9.96e-1	SMART
LRR_TYP	407	430	3.34e-2	SMART
LRRCT	442	492	3.5e-15	SMART
IGc2	509	586	1.34e-4	SMART
IGc2	613	681	2.87e-13	SMART
IGc2	707	772	6.44e-16	SMART

Predicted Effect

probably benign
Transcript: ENSMUST00000204764

SMART Domains

Protein: ENSMUSP00000144816
Gene: ENSMUSG00000045100

Domain	Start	End	E-Value	Type
Pfam:Mito_carr	2	44	1e-7	PFAM

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000205173

Meta Mutation Damage Score

0.0749

Coding Region Coverage

1x: 99.2%
3x: 98.4%
10x: 96.5%
20x: 93.2%

Validation Efficiency

98% (88/90)

MGI Phenotype

Strain: 2675424
PHENOTYPE: Homozygous null mice developed psoriasiform epidermal hyperplasia. Homozygotes exhibit hair follicle, epidermis, vertebral, eye and hearing abnormalities, decreased body size and fat amount, and increased susceptibility to bacterial infection. [provided by MGI curators]

Allele List at MGI

All alleles(5) : Targeted(4) Gene trapped(1)

Other mutations in this stock

Total: 89 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
Ablim1	T	C	19: 57,068,236	D342G	probably damaging	Het
Acad8	T	C	9: 26,979,041	T293A	probably benign	Het
Adamts13	C	A	2: 26,981,753	Y310*	probably null	Het
Adcy6	T	A	15: 98,592,743	Y1102F	probably damaging	Het
Ahctf1	G	A	1: 179,776,108	T791M	probably benign	Het
Ahctf1	A	G	1: 179,799,279	V18A	probably damaging	Het
Ampd3	T	G	7: 110,804,935	S564R	probably damaging	Het
Anapc1	A	T	2: 128,617,697	I1814K	possibly damaging	Het
Arl4c	A	T	1: 88,701,609	L19Q	probably damaging	Het
Atp6v0e2	T	C	6: 48,539,264	Y49H	probably damaging	Het
Ccdc24	G	T	4: 117,869,904		probably benign	Het
Clcn6	A	C	4: 148,024,156	F139V	possibly damaging	Het
Col2a1	A	G	15: 97,982,908		probably benign	Het
Crip2	T	A	12: 113,143,500	C29S	probably damaging	Het
Cyp2a4	A	C	7: 26,314,763	N455T	probably benign	Het
Dhcr7	A	G	7: 143,841,368	D113G	probably damaging	Het
Dhcr7	T	C	7: 143,847,068	Y323H	probably damaging	Het
Dnah7a	A	C	1: 53,496,014	S2696A	probably benign	Het
Dnajc12	A	G	10: 63,397,244	T55A	probably benign	Het
Drosha	G	A	15: 12,912,520	E1075K	probably benign	Het
Duox2	A	G	2: 122,287,121	S911P	possibly damaging	Het
Ephb2	G	A	4: 136,694,058	A327V	possibly damaging	Het
Espl1	C	T	15: 102,320,443	T1711I	possibly damaging	Het
Fmnl2	A	G	2: 52,858,207	K22R	possibly damaging	Het
Fzd6	T	C	15: 39,030,963	F175L	probably damaging	Het
Gm4737	T	A	16: 46,154,819	E65V	probably damaging	Het
Gm5155	A	G	7: 17,905,091		noncoding transcript	Het
Gm6526	A	G	14: 43,748,846	I76M	probably damaging	Het
Gm6583	T	C	5: 112,354,549	T430A	probably benign	Het
Gm9881	A	T	16: 91,170,735	F34I	unknown	Het
Gm9892	T	C	8: 52,196,614	D148G	possibly damaging	Het
Grb10	C	T	11: 11,934,249	V486I	probably damaging	Het
Gtf3c3	C	T	1: 54,417,778	A488T	probably damaging	Het
Hdac4	T	C	1: 92,029,968	H108R	possibly damaging	Het
Hist2h2bb	G	T	3: 96,270,072	L107F	probably damaging	Het
Hmcn1	G	A	1: 150,772,552	T661I	probably benign	Het
Icam1	T	A	9: 21,027,876	I515N	probably damaging	Het
Ifi208	A	G	1: 173,695,654	R497G	possibly damaging	Het
Igsf10	A	T	3: 59,318,767	V2495E	probably damaging	Het
Iqgap1	T	C	7: 80,734,011	M1102V	probably benign	Het
Itgb4	A	T	11: 115,984,047	N410I	probably benign	Het
Jup	T	C	11: 100,379,601	H360R	possibly damaging	Het
Kif20b	T	A	19: 34,974,496	S1685T	possibly damaging	Het
Lins1	T	C	7: 66,712,046		probably null	Het
Mast2	A	G	4: 116,311,955	S814P	probably damaging	Het
Mast4	T	C	13: 102,772,519	T483A	probably damaging	Het
Mcpt1	T	C	14: 56,019,533	M176T	probably benign	Het
Mettl22	A	G	16: 8,473,961	Q38R	probably damaging	Het
Mrm2	T	C	5: 140,328,688	T131A	probably benign	Het
Nde1	T	G	16: 14,185,864	F71V	probably benign	Het
Nxn	C	T	11: 76,263,187	G274D	possibly damaging	Het
Olfr1230	A	T	2: 89,296,906	Y121*	probably null	Het
Olfr183	A	T	16: 58,999,912	T76S	probably benign	Het
Olfr414	T	A	1: 174,430,643	W72R	probably damaging	Het
Olfr427	G	T	1: 174,099,749	C97F	probably damaging	Het
Osbp2	T	C	11: 3,717,175		probably null	Het
Otud7a	C	A	7: 63,754,629		probably benign	Het
Phf3	G	A	1: 30,805,940	L1313F	probably damaging	Het
Pkhd1	A	T	1: 20,522,983	D1635E	probably benign	Het
Plpp1	A	G	13: 112,859,664	H171R	probably damaging	Het
Pofut1	A	G	2: 153,261,246	M172V	probably damaging	Het
Prmt5	A	G	14: 54,508,915	F580L	probably damaging	Het
Rab11fip3	A	T	17: 25,991,322	L987Q	probably damaging	Het
Retnlb	T	A	16: 48,818,665	C76*	probably null	Het
Rnf38	T	C	4: 44,131,584	N399S	probably benign	Het
Sbk1	A	G	7: 126,292,252	E286G	possibly damaging	Het
Scin	T	A	12: 40,077,502	T430S	probably benign	Het
Sgsm1	T	A	5: 113,263,257	T868S	probably benign	Het
Sipa1l1	G	A	12: 82,341,111	R37H	probably damaging	Het
Smchd1	A	T	17: 71,361,837		probably benign	Het
Sned1	G	A	1: 93,281,654	V830M	possibly damaging	Het
Soga1	A	T	2: 157,020,448	Y1520*	probably null	Het
Stk32c	C	T	7: 139,125,179	R23Q	probably damaging	Het
Sult1d1	A	G	5: 87,564,739	M82T	probably benign	Het
Tat	T	C	8: 109,996,918	L346P	probably damaging	Het
Tenm3	C	A	8: 48,310,625	G789V	probably damaging	Het
Thsd7a	C	T	6: 12,338,622	S1203N	probably benign	Het
Tmem191c	G	A	16: 17,277,962		probably null	Het
Tmem268	A	G	4: 63,580,338	T239A	probably damaging	Het
Tmem82	A	C	4: 141,616,278	L227R	possibly damaging	Het
Ttn	A	T	2: 76,727,032	I29906N	probably damaging	Het
Txndc15	T	C	13: 55,721,574		probably benign	Het
Ubqln4	A	G	3: 88,565,845	I536V	probably benign	Het
Unc80	C	T	1: 66,521,581	H823Y	possibly damaging	Het
Vmn2r102	A	T	17: 19,694,581	I803F	probably benign	Het
Vmn2r6	G	T	3: 64,538,158	Y715*	probably null	Het
Vmn2r74	A	T	7: 85,961,410	C25S	probably damaging	Het
Wdr38	A	G	2: 39,000,979	T261A	probably benign	Het
Zfp653	T	C	9: 22,058,220	E250G	possibly damaging	Het

Other mutations in Lrig1

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL00474:Lrig1	APN	6	94611404	missense	probably damaging	0.99
IGL01356:Lrig1	APN	6	94654920	missense	probably benign	0.00
IGL01356:Lrig1	APN	6	94609893	missense	probably damaging	1.00
IGL02001:Lrig1	APN	6	94607324	missense	probably benign	0.00
IGL02019:Lrig1	APN	6	94616429	missense	probably damaging	0.98
IGL02177:Lrig1	APN	6	94663996	missense	possibly damaging	0.76
IGL02274:Lrig1	APN	6	94663938	missense	possibly damaging	0.90
IGL03197:Lrig1	APN	6	94606118	missense	probably benign
IGL03263:Lrig1	APN	6	94611647	missense	probably benign	0.00
IGL03327:Lrig1	APN	6	94606123	missense	probably benign	0.10
N/A - 293:Lrig1	UTSW	6	94609087	missense	probably benign
R0019:Lrig1	UTSW	6	94607349	nonsense	probably null
R0019:Lrig1	UTSW	6	94607349	nonsense	probably null
R0961:Lrig1	UTSW	6	94663914	splice site	probably benign
R1018:Lrig1	UTSW	6	94622602	splice site	probably benign
R1381:Lrig1	UTSW	6	94606130	missense	probably benign	0.04
R1498:Lrig1	UTSW	6	94627987	missense	possibly damaging	0.89
R1888:Lrig1	UTSW	6	94654878	missense	probably benign	0.03
R1888:Lrig1	UTSW	6	94654878	missense	probably benign	0.03
R2273:Lrig1	UTSW	6	94608143	missense	probably damaging	1.00
R2513:Lrig1	UTSW	6	94617366	splice site	probably null
R3001:Lrig1	UTSW	6	94608777	missense	probably damaging	1.00
R3002:Lrig1	UTSW	6	94608777	missense	probably damaging	1.00
R3732:Lrig1	UTSW	6	94611576	missense	possibly damaging	0.86
R3732:Lrig1	UTSW	6	94611576	missense	possibly damaging	0.86
R3733:Lrig1	UTSW	6	94611576	missense	possibly damaging	0.86
R3772:Lrig1	UTSW	6	94605817	missense	probably benign	0.00
R4089:Lrig1	UTSW	6	94609859	missense	possibly damaging	0.83
R4093:Lrig1	UTSW	6	94613578	missense	probably benign	0.10
R4095:Lrig1	UTSW	6	94613578	missense	probably benign	0.10
R4225:Lrig1	UTSW	6	94622658	missense	probably damaging	1.00
R4917:Lrig1	UTSW	6	94609719	missense	probably damaging	1.00
R4951:Lrig1	UTSW	6	94663978	missense	probably damaging	1.00
R4976:Lrig1	UTSW	6	94625062	missense	probably damaging	1.00
R5000:Lrig1	UTSW	6	94611449	missense	probably damaging	1.00
R5149:Lrig1	UTSW	6	94628044	missense	possibly damaging	0.93
R5732:Lrig1	UTSW	6	94699539	nonsense	probably null
R5988:Lrig1	UTSW	6	94628042	missense	probably damaging	0.99
R6064:Lrig1	UTSW	6	94626447	missense	probably damaging	1.00
R6292:Lrig1	UTSW	6	94616445	missense	probably damaging	1.00
R6723:Lrig1	UTSW	6	94626405	missense	probably damaging	1.00
R6815:Lrig1	UTSW	6	94625029	missense	probably damaging	1.00
R6889:Lrig1	UTSW	6	94625063	missense	probably benign	0.07
R6995:Lrig1	UTSW	6	94611629	missense	possibly damaging	0.95
R7404:Lrig1	UTSW	6	94626471	missense	probably damaging	1.00
R7487:Lrig1	UTSW	6	94606118	missense	probably benign
R7732:Lrig1	UTSW	6	94626377	missense	probably benign	0.05
R7915:Lrig1	UTSW	6	94630101	critical splice donor site	probably null
R8133:Lrig1	UTSW	6	94611629	missense	possibly damaging	0.95
R8768:Lrig1	UTSW	6	94654859	missense	possibly damaging	0.88
R9045:Lrig1	UTSW	6	94608707	critical splice donor site	probably null
R9227:Lrig1	UTSW	6	94630132	missense	probably damaging	1.00
Z1176:Lrig1	UTSW	6	94609026	missense	possibly damaging	0.50

Predicted Primers

PCR Primer
(F):5'- CGAAGTGAAACCTTGTCGGGACAAC -3'
(R):5'- TGCTGGGAAAAGCAGTGGTCTG -3'

Sequencing Primer
(F):5'- TCATAGACTGACTTACCTAAGCG -3'
(R):5'- AAAGCAGTGGTCTGGTGGC -3'

Posted On

2014-03-28