Mutagenetix > Incidental Mutation

Incidental Mutation 'R4994:Lingo4'

385077

Institutional Source

Beutler Lab

Gene Symbol

Lingo4

Ensembl Gene

ENSMUSG00000044505

Gene Name

leucine rich repeat and Ig domain containing 4

Synonyms

Lrrn6d, LERN4, A530050P17Rik

MMRRC Submission

042588-MU

Accession Numbers

Essential gene?

Probably non essential (E-score: 0.055) question?

Stock #

R4994 (G1)

Quality Score

225

Status

Validated

Chromosome

Chromosomal Location

94398517-94404501 bp(+) (GRCm38)

Type of Mutation

missense

DNA Base Change (assembly)

A to G at 94402541 bp (GRCm38)

Zygosity

Heterozygous

Amino Acid Change

Histidine to Arginine at position 262 (H262R)

Ref Sequence

ENSEMBL: ENSMUSP00000058050 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000029795] [ENSMUST00000050975] [ENSMUST00000197040] [ENSMUST00000200009]

AlphaFold

no structure available at present

Predicted Effect

probably benign
Transcript: ENSMUST00000029795

SMART Domains

Protein: ENSMUSP00000029795
Gene: ENSMUSG00000028150

Domain	Start	End	E-Value	Type
ZnF_C4	28	99	7.2e-37	SMART
low complexity region	116	133	N/A	INTRINSIC
HOLI	320	474	3.78e-22	SMART

Predicted Effect

probably benign
Transcript: ENSMUST00000050975
AA Change: H262R

PolyPhen 2 Score 0.000 (Sensitivity: 1.00; Specificity: 0.00)

SMART Domains

Protein: ENSMUSP00000058050
Gene: ENSMUSG00000044505
AA Change: H262R

Domain	Start	End	E-Value	Type
LRRNT	55	89	1.23e-4	SMART
LRR	88	107	2.76e2	SMART
LRR_TYP	108	131	1.02e-6	SMART
LRR_TYP	132	155	7.26e-3	SMART
LRR	156	179	1.33e1	SMART
LRR_TYP	180	203	5.42e-2	SMART
LRR	204	227	4.45e1	SMART
LRR	228	251	3.27e1	SMART
LRR	300	323	4.83e0	SMART
LRR	324	347	3.07e-1	SMART
LRR	348	371	3.36e1	SMART
LRRCT	383	436	5.24e-5	SMART
IGc2	451	516	3.53e-13	SMART
transmembrane domain	560	582	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000197040

SMART Domains

Protein: ENSMUSP00000143763
Gene: ENSMUSG00000028150

Domain	Start	End	E-Value	Type
ZnF_C4	7	78	7.2e-37	SMART
low complexity region	95	112	N/A	INTRINSIC
HOLI	299	453	3.78e-22	SMART

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000198793

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000198829

Predicted Effect

probably benign
Transcript: ENSMUST00000200009

SMART Domains

Protein: ENSMUSP00000143610
Gene: ENSMUSG00000028150

Domain	Start	End	E-Value	Type
ZnF_C4	13	84	7.2e-37	SMART
low complexity region	101	118	N/A	INTRINSIC
PDB:3L0L\|B	243	309	1e-22	PDB

Meta Mutation Damage Score

0.0898

Coding Region Coverage

1x: 99.2%
3x: 98.5%
10x: 96.8%
20x: 94.0%

Validation Efficiency

100% (79/79)

Allele List at MGI

Other mutations in this stock

Total: 75 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
1190002N15Rik	C	A	9: 94,537,433	R148L	probably benign	Het
1700030K09Rik	A	G	8: 72,455,118	E364G	probably benign	Het
4930505A04Rik	C	T	11: 30,426,349	V173M	probably damaging	Het
Abcb4	A	G	5: 8,928,524	T557A	probably damaging	Het
Acadm	C	T	3: 153,929,584	E298K	probably damaging	Het
Adrb3	T	C	8: 27,227,827		probably null	Het
Aldh1b1	A	G	4: 45,803,128	Y222C	possibly damaging	Het
Ankrd6	A	G	4: 32,860,387	Y19H	probably damaging	Het
Arhgap21	T	A	2: 20,849,890	T1554S	probably benign	Het
BC043934	T	C	9: 96,437,120		noncoding transcript	Het
Birc6	A	G	17: 74,594,324		probably benign	Het
Blm	A	C	7: 80,458,825	F1357C	probably benign	Het
Cd209a	T	C	8: 3,747,713		probably null	Het
Cdk7	G	A	13: 100,717,595	H129Y	probably damaging	Het
Clec14a	G	T	12: 58,268,284	P184Q	probably damaging	Het
Cma1	T	A	14: 55,941,671	I243F	probably damaging	Het
Cntnap3	G	T	13: 64,761,984	T769K	possibly damaging	Het
Col5a1	A	C	2: 28,032,739	K273T	possibly damaging	Het
Csnk1e	A	G	15: 79,424,929	Y266H	probably damaging	Het
Cyb5d1	A	G	11: 69,393,771	L185S	probably damaging	Het
Dennd5b	T	C	6: 149,041,500		probably null	Het
Drp2	G	A	X: 134,441,316	R567H	probably damaging	Homo
Dzank1	T	G	2: 144,522,566	D37A	probably damaging	Het
Echdc2	A	G	4: 108,165,628	I34V	probably benign	Het
Esm1	A	T	13: 113,213,431	R128S	probably benign	Het
Fbrsl1	A	G	5: 110,447,951	S73P	probably damaging	Het
Fbxo18	T	A	2: 11,764,230	I251F	probably damaging	Het
Fbxo6	A	T	4: 148,149,491	S49R	probably damaging	Het
Gm13089	T	A	4: 143,698,369	Q168L	possibly damaging	Het
Gm17093	A	T	14: 44,519,322	Q82L	probably damaging	Het
Hmcn2	T	C	2: 31,458,055		probably null	Het
Hspa4l	C	A	3: 40,745,649		probably benign	Het
Il3ra	G	A	14: 14,351,080	A201T	probably benign	Het
Irx5	T	A	8: 92,360,781	V447E	probably damaging	Het
Kif14	G	T	1: 136,482,959	L668F	probably damaging	Het
Lag3	T	A	6: 124,904,453	R519W	unknown	Het
Lgr4	A	G	2: 110,011,938	N756S	probably damaging	Het
Lkaaear1	C	A	2: 181,697,583	G25*	probably null	Het
Marf1	T	C	16: 14,114,231	K1641E	probably benign	Het
Mtfmt	T	C	9: 65,443,851		probably benign	Het
Mtif3	G	A	5: 146,956,788	T203M	probably benign	Het
Mycbp2	A	G	14: 103,169,994	I2740T	probably benign	Het
Nrd1	A	G	4: 109,046,612	T720A	probably benign	Het
Olfr715	T	C	7: 107,129,064	T110A	probably benign	Het
Peak1	T	A	9: 56,241,276	D32V	possibly damaging	Het
Pigr	G	A	1: 130,841,817	D122N	probably benign	Het
Plekhg3	A	G	12: 76,565,537	R391G	possibly damaging	Het
Ppfia3	T	C	7: 45,341,118	D919G	probably damaging	Het
Rnase2b	T	A	14: 51,162,751	D96E	possibly damaging	Het
Rsf1	CGGCGGC	CGGCGGCCGCGGCGGC	7: 97,579,923		probably benign	Het
Rsf1	G	GACGGCGGCT	7: 97,579,909		probably benign	Het
Serpina3f	A	G	12: 104,220,356	T394A	probably benign	Het
Six3	A	G	17: 85,621,292	N18S	possibly damaging	Het
Slc12a5	T	A	2: 164,983,365		probably null	Het
Slc35f6	A	G	5: 30,648,083	N21S	probably damaging	Het
Slc39a6	A	T	18: 24,596,294	I454N	probably damaging	Het
Slc40a1	T	A	1: 45,909,664	E485D	probably damaging	Het
Sort1	G	A	3: 108,328,069	C255Y	probably damaging	Het
Stab2	T	A	10: 86,949,907	T624S	probably benign	Het
Stk33	T	A	7: 109,340,398	I99L	probably benign	Het
Taf4b	T	A	18: 14,898,043	I828N	probably damaging	Het
Terf2	T	C	8: 107,076,478		probably benign	Het
Timd4	C	T	11: 46,815,517	R49C	probably damaging	Het
Tmem57	A	G	4: 134,828,299	Y288H	probably damaging	Het
Tpte	T	C	8: 22,318,346	S166P	probably benign	Het
Trabd2b	T	C	4: 114,406,855	L13P	probably benign	Het
Trappc11	A	T	8: 47,522,441	Y247*	probably null	Het
Trnt1	C	T	6: 106,778,892	Q303*	probably null	Het
Tspyl5	T	A	15: 33,687,055	Q248L	possibly damaging	Het
Ubxn7	A	T	16: 32,381,504	K337N	probably damaging	Het
Unc13a	T	A	8: 71,643,172	I1234F	probably benign	Het
Vmn1r127	A	T	7: 21,319,018	F282I	probably damaging	Het
Wdhd1	A	T	14: 47,268,654		probably null	Het
Zfp605	A	G	5: 110,127,486	K157E	probably damaging	Het
Zhx2	T	A	15: 57,821,359	D41E	probably benign	Het

Other mutations in Lingo4

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL01074:Lingo4	APN	3	94403288	missense	probably benign	0.00
IGL02662:Lingo4	APN	3	94401817	unclassified	probably benign
IGL02687:Lingo4	APN	3	94402097	missense	probably damaging	1.00
IGL02711:Lingo4	APN	3	94403393	missense	probably benign
IGL03001:Lingo4	APN	3	94402396	missense	probably damaging	1.00
IGL03260:Lingo4	APN	3	94401943	missense	probably benign
PIT4449001:Lingo4	UTSW	3	94401932	missense	probably benign
R0088:Lingo4	UTSW	3	94402033	missense	probably benign	0.39
R0616:Lingo4	UTSW	3	94403081	missense	probably benign	0.00
R1455:Lingo4	UTSW	3	94399392	unclassified	probably benign
R1733:Lingo4	UTSW	3	94403178	missense	probably benign	0.00
R2001:Lingo4	UTSW	3	94403075	missense	probably damaging	1.00
R2085:Lingo4	UTSW	3	94402245	missense	probably damaging	1.00
R3793:Lingo4	UTSW	3	94402378	missense	probably benign
R3805:Lingo4	UTSW	3	94402100	missense	probably damaging	1.00
R3806:Lingo4	UTSW	3	94402100	missense	probably damaging	1.00
R4438:Lingo4	UTSW	3	94402897	missense	possibly damaging	0.79
R4660:Lingo4	UTSW	3	94403365	missense	probably benign	0.00
R4724:Lingo4	UTSW	3	94402876	nonsense	probably null
R4981:Lingo4	UTSW	3	94399454	missense	probably benign	0.18
R4994:Lingo4	UTSW	3	94403001	missense	probably benign	0.02
R5600:Lingo4	UTSW	3	94401913	missense	probably benign
R6188:Lingo4	UTSW	3	94402850	missense	probably damaging	1.00
R6267:Lingo4	UTSW	3	94403390	missense	probably benign	0.02
R6303:Lingo4	UTSW	3	94403206	missense	probably damaging	1.00
R6304:Lingo4	UTSW	3	94403206	missense	probably damaging	1.00
R6789:Lingo4	UTSW	3	94399355	unclassified	probably benign
R7313:Lingo4	UTSW	3	94403144	missense	possibly damaging	0.95
R7329:Lingo4	UTSW	3	94402855	missense	probably benign
R7631:Lingo4	UTSW	3	94399460	missense	possibly damaging	0.93
R7908:Lingo4	UTSW	3	94402234	missense	probably benign	0.19
R8277:Lingo4	UTSW	3	94402624	missense	possibly damaging	0.61
R8848:Lingo4	UTSW	3	94403533	missense	probably benign
R9257:Lingo4	UTSW	3	94403369	missense	probably benign	0.05
R9753:Lingo4	UTSW	3	94402186	nonsense	probably null
X0054:Lingo4	UTSW	3	94403376	missense	possibly damaging	0.54
Z1177:Lingo4	UTSW	3	94402994	missense	probably damaging	1.00

Predicted Primers

PCR Primer
(F):5'- GGCCAAGTTAAGTACCATCACTCTG -3'
(R):5'- GATTGAGGTGAGGCAAGCTC -3'

Sequencing Primer
(F):5'- TCTGGAACGTTGCAACCTCAG -3'
(R):5'- TGAGGCAAGCTCCTGACAG -3'

Posted On

2016-05-10