Mutagenetix > Incidental Mutation

Incidental Mutation 'R0102:Lrtm1'

63303

Institutional Source

Beutler Lab

Gene Symbol

Lrtm1

Ensembl Gene

ENSMUSG00000045776

Gene Name

leucine-rich repeats and transmembrane domains 1

Synonyms

A930016D02Rik

MMRRC Submission

038388-MU

Accession Numbers

Essential gene?

Probably non essential (E-score: 0.069) question?

Stock #

R0102 (G1)

Quality Score

126

Status

Validated

Chromosome

Chromosomal Location

28740165-28755599 bp(+) (GRCm39)

Type of Mutation

splice site

DNA Base Change (assembly)

T to A at 28744184 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Ref Sequence

ENSEMBL: ENSMUSP00000153372 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000022567] [ENSMUST00000055662] [ENSMUST00000224708] [ENSMUST00000224760]

AlphaFold

Q8BXQ3

Predicted Effect

probably benign
Transcript: ENSMUST00000022567

SMART Domains

Protein: ENSMUSP00000022567
Gene: ENSMUSG00000021991

Domain	Start	End	E-Value	Type
low complexity region	14	27	N/A	INTRINSIC
Blast:WNT1	28	103	2e-33	BLAST
Pfam:VWA_N	113	229	6.8e-40	PFAM
VWA	254	439	4.13e-24	SMART
Pfam:Cache_1	452	548	3e-32	PFAM
low complexity region	1070	1088	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000055662

SMART Domains

Protein: ENSMUSP00000061828
Gene: ENSMUSG00000045776

Domain	Start	End	E-Value	Type
LRRNT	32	66	4.41e-6	SMART
LRR	65	84	2.33e2	SMART
LRR	85	108	2.67e-1	SMART
LRR	109	131	1.15e1	SMART
LRR_TYP	133	156	3.89e-3	SMART
LRRCT	192	245	8.63e-6	SMART
transmembrane domain	297	319	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000224708

Predicted Effect

probably benign
Transcript: ENSMUST00000224760

Meta Mutation Damage Score

0.0898

Coding Region Coverage

1x: 99.1%
3x: 98.5%
10x: 96.5%
20x: 91.8%

Validation Efficiency

98% (65/66)

Allele List at MGI

Other mutations in this stock

Total: 57 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
1110002E22Rik	A	G	3: 137,773,874 (GRCm39)	K1021R	probably damaging	Het
2610528J11Rik	G	A	4: 118,386,762 (GRCm39)	V36M	probably damaging	Het
4930402F06Rik	T	A	2: 35,265,795 (GRCm39)	R292*	probably null	Het
Abcb4	T	C	5: 8,959,194 (GRCm39)	F207S	probably damaging	Het
Afap1l2	G	T	19: 56,916,872 (GRCm39)		probably benign	Het
Arfgef2	A	T	2: 166,687,385 (GRCm39)	H203L	probably benign	Het
Cfi	A	C	3: 129,642,416 (GRCm39)	H90P	probably damaging	Het
Col1a2	T	A	6: 4,520,775 (GRCm39)	S371T	possibly damaging	Het
Cyp2d10	C	T	15: 82,288,794 (GRCm39)	M229I	probably benign	Het
Dnah5	A	G	15: 28,245,897 (GRCm39)		probably benign	Het
Dnttip2	G	T	3: 122,069,452 (GRCm39)	M222I	probably benign	Het
Dync1li2	A	T	8: 105,154,757 (GRCm39)	Y284N	probably benign	Het
Ebf1	T	C	11: 44,882,282 (GRCm39)	Y413H	probably benign	Het
Exog	A	G	9: 119,281,319 (GRCm39)	T186A	possibly damaging	Het
Fam171a2	T	C	11: 102,334,939 (GRCm39)	N66S	possibly damaging	Het
Gad1	G	A	2: 70,417,583 (GRCm39)		probably null	Het
Golgb1	C	A	16: 36,695,830 (GRCm39)		probably benign	Het
Gprc5a	A	T	6: 135,056,033 (GRCm39)	N160I	probably damaging	Het
Haus3	A	G	5: 34,323,258 (GRCm39)		probably null	Het
Klhl20	A	T	1: 160,918,015 (GRCm39)	C90*	probably null	Het
Krt84	T	A	15: 101,437,138 (GRCm39)	I342L	probably damaging	Het
Lifr	G	A	15: 7,208,373 (GRCm39)	D584N	probably damaging	Het
Lrp1b	G	A	2: 41,298,997 (GRCm39)		probably benign	Het
Med25	C	T	7: 44,534,904 (GRCm39)	V80I	possibly damaging	Het
Mest	A	G	6: 30,746,269 (GRCm39)	I279V	probably damaging	Het
Mki67	T	C	7: 135,315,532 (GRCm39)	R81G	probably benign	Het
Naa25	A	G	5: 121,573,632 (GRCm39)	D787G	possibly damaging	Het
Naaladl1	C	T	19: 6,162,534 (GRCm39)	P465S	probably damaging	Het
Nanos3	C	T	8: 84,902,763 (GRCm39)	R133Q	probably damaging	Het
Necab3	G	A	2: 154,387,232 (GRCm39)	R302C	probably damaging	Het
Nsg1	A	T	5: 38,316,254 (GRCm39)	D32E	probably damaging	Het
Nuggc	A	G	14: 65,851,000 (GRCm39)	D290G	probably null	Het
Nup205	A	T	6: 35,202,715 (GRCm39)		probably benign	Het
Or11g27	T	A	14: 50,771,088 (GRCm39)	L73Q	probably damaging	Het
Or2w6	T	C	13: 21,842,905 (GRCm39)	D196G	probably damaging	Het
Or4a77	T	C	2: 89,486,999 (GRCm39)	N262S	probably benign	Het
Or4c111	T	C	2: 88,844,015 (GRCm39)	Y131C	probably damaging	Het
Or4f57	G	C	2: 111,790,942 (GRCm39)	Q159E	probably damaging	Het
Or8h10	A	T	2: 86,808,549 (GRCm39)	I197N	possibly damaging	Het
Otp	T	C	13: 95,013,663 (GRCm39)	V27A	probably benign	Het
Phip	A	T	9: 82,787,845 (GRCm39)		probably null	Het
Pon2	A	G	6: 5,289,091 (GRCm39)		probably benign	Het
Ppp1r12b	T	A	1: 134,763,637 (GRCm39)		probably null	Het
Ppp1r15b	A	G	1: 133,060,908 (GRCm39)	N475S	probably damaging	Het
Prrt3	A	T	6: 113,474,790 (GRCm39)	L144H	probably damaging	Het
Psmb7	A	G	2: 38,533,377 (GRCm39)	V50A	possibly damaging	Het
Sacs	T	A	14: 61,442,017 (GRCm39)	S1354R	probably damaging	Het
Sdcbp2	A	G	2: 151,425,884 (GRCm39)	T29A	probably benign	Het
Shbg	T	A	11: 69,508,415 (GRCm39)		probably benign	Het
Shcbp1	A	G	8: 4,794,452 (GRCm39)	I447T	probably damaging	Het
Tbc1d9b	T	C	11: 50,026,676 (GRCm39)	V48A	probably damaging	Het
Thbd	A	T	2: 148,248,903 (GRCm39)	C322S	probably damaging	Het
Tnfrsf21	C	T	17: 43,349,104 (GRCm39)	H239Y	probably benign	Het
Trappc12	A	T	12: 28,796,751 (GRCm39)	F260L	probably damaging	Het
Trim10	C	A	17: 37,181,074 (GRCm39)	H102N	probably damaging	Het
Ube2u	A	G	4: 100,407,122 (GRCm39)	T215A	possibly damaging	Het
Vcan	T	G	13: 89,851,787 (GRCm39)	T1058P	probably benign	Het

Other mutations in Lrtm1

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL02191:Lrtm1	APN	14	28,743,906 (GRCm39)	missense	probably benign	0.00
R0102:Lrtm1	UTSW	14	28,744,184 (GRCm39)	splice site	probably benign
R0602:Lrtm1	UTSW	14	28,744,179 (GRCm39)	splice site	probably benign
R5214:Lrtm1	UTSW	14	28,743,651 (GRCm39)	missense	possibly damaging	0.58
R5253:Lrtm1	UTSW	14	28,743,801 (GRCm39)	missense	probably benign	0.13
R5787:Lrtm1	UTSW	14	28,743,947 (GRCm39)	missense	possibly damaging	0.89
R5937:Lrtm1	UTSW	14	28,743,787 (GRCm39)	missense	possibly damaging	0.90
R6238:Lrtm1	UTSW	14	28,749,628 (GRCm39)	missense	probably benign	0.02
R6850:Lrtm1	UTSW	14	28,749,407 (GRCm39)	missense	probably benign	0.00
R7304:Lrtm1	UTSW	14	28,744,075 (GRCm39)	missense	probably damaging	0.97
R7363:Lrtm1	UTSW	14	28,743,850 (GRCm39)	missense	probably damaging	1.00
R7385:Lrtm1	UTSW	14	28,749,673 (GRCm39)	missense	probably benign	0.00
R8181:Lrtm1	UTSW	14	28,743,894 (GRCm39)	missense	probably damaging	1.00
R9299:Lrtm1	UTSW	14	28,743,714 (GRCm39)	missense	probably damaging	1.00
RF036:Lrtm1	UTSW	14	28,743,400 (GRCm39)	frame shift	probably null
RF063:Lrtm1	UTSW	14	28,743,400 (GRCm39)	frame shift	probably null

Predicted Primers

PCR Primer
(F):5'- AGAAAGCAGCTTTGCCCATGCC -3'
(R):5'- TGCACACTGTGATGAGCATAACACC -3'

Sequencing Primer
(F):5'- GGGAGCTAGATCTTTCATCCAAC -3'
(R):5'- TGTGATGAGCATAACACCCAATG -3'

Posted On

2013-07-30