Mutagenetix > Incidental Mutation

Incidental Mutation 'R1656:Lsamp'

189139

Institutional Source

Beutler Lab

Gene Symbol

Lsamp

Ensembl Gene

ENSMUSG00000061080

Gene Name

limbic system-associated membrane protein

Synonyms

B130007O04Rik, D930023J12Rik, Lam, Lamp

MMRRC Submission

039692-MU

Accession Numbers

Essential gene?

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

Stock #

R1656 (G1)

Quality Score

225

Status

Validated

Chromosome

Chromosomal Location

39804723-42002042 bp(+) (GRCm39)

Type of Mutation

missense

DNA Base Change (assembly)

C to T at 41775682 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Proline to Serine at position 178 (P178S)

Ref Sequence

ENSEMBL: ENSMUSP00000139667 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000078873] [ENSMUST00000099761] [ENSMUST00000187695]

AlphaFold

Q8BLK3

Predicted Effect

probably damaging
Transcript: ENSMUST00000078873
AA Change: P161S

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

SMART Domains

Protein: ENSMUSP00000077913
Gene: ENSMUSG00000061080
AA Change: P161S

Domain	Start	End	E-Value	Type
signal peptide	1	28	N/A	INTRINSIC
IG	38	129	1.81e-10	SMART
IGc2	144	204	3.7e-16	SMART
IGc2	230	297	2.12e-16	SMART

Predicted Effect

probably damaging
Transcript: ENSMUST00000099761
AA Change: P161S

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

SMART Domains

Protein: ENSMUSP00000097349
Gene: ENSMUSG00000061080
AA Change: P161S

Domain	Start	End	E-Value	Type
low complexity region	12	28	N/A	INTRINSIC
IG	38	129	1.81e-10	SMART
IGc2	144	204	3.7e-16	SMART
IGc2	230	297	2.12e-16	SMART
transmembrane domain	313	335	N/A	INTRINSIC

Predicted Effect

probably damaging
Transcript: ENSMUST00000187695
AA Change: P178S

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

SMART Domains

Protein: ENSMUSP00000139667
Gene: ENSMUSG00000061080
AA Change: P178S

Domain	Start	End	E-Value	Type
signal peptide	1	25	N/A	INTRINSIC
IG	55	146	7.6e-13	SMART
IGc2	161	221	1.5e-18	SMART
IGc2	247	314	8.6e-19	SMART
transmembrane domain	330	352	N/A	INTRINSIC

Meta Mutation Damage Score

0.7172

Coding Region Coverage

1x: 99.2%
3x: 98.5%
10x: 96.6%
20x: 93.3%

Validation Efficiency

96% (79/82)

MGI Phenotype

FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] This gene encodes a member of the immunoglobulin LAMP, OBCAM and neurotrimin (IgLON) family of proteins. The encoded preproprotein is proteolytically processed to generate a neuronal surface glycoprotein. This protein may act as a selective homophilic adhesion molecule during axon guidance and neuronal growth in the developing limbic system. The encoded protein may also function as a tumor suppressor and may play a role in neuropsychiatric disorders. Alternative splicing results in multiple transcript variants, at least one of which encodes a preproprotein that is proteolytically processed. [provided by RefSeq, Jan 2016]
PHENOTYPE: Mice homozygous for mutations in this gene are hyperresponsive to novel environments. Mice homozygous for another knock-out allele exhibit reduced barbering, whisker trimming, anxiety, dominance, and aggression. [provided by MGI curators]

Allele List at MGI

Other mutations in this stock

Total: 77 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
1700024G13Rik	A	T	14: 32,099,901 (GRCm39)	I42N	possibly damaging	Het
Adarb2	T	A	13: 8,253,287 (GRCm39)	S11T	unknown	Het
Adgrg1	C	T	8: 95,738,438 (GRCm39)	Q644*	probably null	Het
Akr1c18	T	G	13: 4,195,252 (GRCm39)	I69L	probably benign	Het
Anxa9	C	T	3: 95,207,884 (GRCm39)	V219I	probably benign	Het
Aqp9	T	C	9: 71,045,385 (GRCm39)	T101A	probably benign	Het
Arhgef1	C	T	7: 24,613,057 (GRCm39)	R251W	probably damaging	Het
Arl13b	T	A	16: 62,627,007 (GRCm39)	E231D	possibly damaging	Het
Atosa	C	T	9: 74,916,241 (GRCm39)	A280V	probably benign	Het
Bcl2l11	C	T	2: 128,000,176 (GRCm39)	A173V	probably benign	Het
Ccni	A	T	5: 93,335,933 (GRCm39)		probably null	Het
Cdh18	A	G	15: 23,474,485 (GRCm39)	E785G	probably benign	Het
Cdk4	A	G	10: 126,900,849 (GRCm39)	Y167C	probably benign	Het
Clip1	A	C	5: 123,768,466 (GRCm39)	V757G	possibly damaging	Het
Ctsc	T	C	7: 87,930,616 (GRCm39)	V65A	possibly damaging	Het
Cuedc2	G	A	19: 46,320,427 (GRCm39)	S48L	probably damaging	Het
Cyp39a1	T	A	17: 43,978,510 (GRCm39)	M4K	possibly damaging	Het
Dgcr8	T	C	16: 18,074,577 (GRCm39)	S733G	probably benign	Het
Dnhd1	T	C	7: 105,363,488 (GRCm39)	S4017P	probably damaging	Het
Ehbp1	A	G	11: 22,096,694 (GRCm39)	I255T	probably benign	Het
Fam83e	T	C	7: 45,371,687 (GRCm39)	V28A	probably benign	Het
Fanci	A	G	7: 79,054,936 (GRCm39)		probably benign	Het
Fat1	C	T	8: 45,478,567 (GRCm39)	Q2538*	probably null	Het
Fshr	A	G	17: 89,508,009 (GRCm39)	F11S	unknown	Het
Gab1	G	T	8: 81,515,388 (GRCm39)	P310Q	probably damaging	Het
Galnt18	A	G	7: 111,215,699 (GRCm39)		probably benign	Het
Gm28042	C	A	2: 119,869,370 (GRCm39)	P355Q	probably damaging	Het
H2-DMa	A	G	17: 34,357,116 (GRCm39)	T205A	possibly damaging	Het
Hnf4g	A	T	3: 3,718,011 (GRCm39)	D420V	probably benign	Het
Ift70b	T	C	2: 75,767,760 (GRCm39)	K331R	probably benign	Het
Il1b	A	G	2: 129,207,989 (GRCm39)	V164A	probably damaging	Het
Irf4	C	A	13: 30,941,485 (GRCm39)	H279Q	probably benign	Het
Loxhd1	A	G	18: 77,409,364 (GRCm39)	T203A	possibly damaging	Het
Mcm6	T	C	1: 128,277,155 (GRCm39)	S223G	possibly damaging	Het
Misp	G	T	10: 79,661,777 (GRCm39)	V65L	possibly damaging	Het
Mov10	A	G	3: 104,706,912 (GRCm39)	V666A	probably benign	Het
Mycbp2	A	T	14: 103,485,194 (GRCm39)	D1102E	probably damaging	Het
Myef2	G	T	2: 124,939,860 (GRCm39)		probably null	Het
Myo1e	T	A	9: 70,303,216 (GRCm39)	I1079N	probably damaging	Het
Nisch	G	T	14: 30,899,228 (GRCm39)		probably benign	Het
Obox7	T	C	7: 14,399,346 (GRCm39)	S191P	probably benign	Het
Or11h7	T	C	14: 50,891,465 (GRCm39)	V257A	probably benign	Het
Or13p10	A	G	4: 118,523,385 (GRCm39)	I224V	probably damaging	Het
Or14c40	C	T	7: 86,313,331 (GRCm39)	L154F	probably benign	Het
Or1j11	G	A	2: 36,311,658 (GRCm39)	V83M	probably benign	Het
Or5w14	A	T	2: 87,541,422 (GRCm39)	V276D	possibly damaging	Het
Or7d9	A	G	9: 20,197,873 (GRCm39)	R301G	probably damaging	Het
Phf1	T	C	17: 27,156,333 (GRCm39)	S492P	possibly damaging	Het
Phyh	A	T	2: 4,943,164 (GRCm39)	N337I	probably damaging	Het
Poteg	A	T	8: 27,985,060 (GRCm39)		probably benign	Het
Prag1	G	T	8: 36,571,500 (GRCm39)	K694N	probably damaging	Het
Proser2	C	T	2: 6,107,870 (GRCm39)	E49K	probably damaging	Het
Pskh1	T	C	8: 106,656,389 (GRCm39)	V355A	possibly damaging	Het
Psmc2	T	C	5: 22,004,549 (GRCm39)	V182A	possibly damaging	Het
Rbfox1	A	G	16: 7,124,333 (GRCm39)		probably benign	Het
Slc26a7	A	T	4: 14,621,221 (GRCm39)	I55K	possibly damaging	Het
Slc5a8	G	A	10: 88,761,648 (GRCm39)		probably null	Het
Slitrk3	T	C	3: 72,957,672 (GRCm39)	R367G	probably damaging	Het
Snrnp40	C	G	4: 130,271,836 (GRCm39)		probably null	Het
Spata31	A	G	13: 65,068,953 (GRCm39)	E367G	probably benign	Het
Srrm3	A	T	5: 135,863,892 (GRCm39)		probably null	Het
Ssmem1	T	C	6: 30,517,507 (GRCm39)	S6P	probably damaging	Het
Swap70	A	G	7: 109,821,034 (GRCm39)	D6G	probably benign	Het
Syt1	T	C	10: 108,419,776 (GRCm39)	E295G	probably damaging	Het
Tap2	A	T	17: 34,424,927 (GRCm39)	I192F	possibly damaging	Het
Tgoln1	C	T	6: 72,591,068 (GRCm39)	R348H	probably damaging	Het
Tln2	C	T	9: 67,134,389 (GRCm39)	V1373I	possibly damaging	Het
Tmc2	A	G	2: 130,089,854 (GRCm39)	D613G	possibly damaging	Het
Tmem62	T	A	2: 120,837,483 (GRCm39)	Y597N	probably benign	Het
Trhr2	T	A	8: 123,084,185 (GRCm39)	T272S	probably damaging	Het
Vmn2r92	T	C	17: 18,372,198 (GRCm39)	S3P	probably benign	Het
Wdfy3	A	T	5: 102,089,313 (GRCm39)	I627N	probably damaging	Het
Zfhx4	T	C	3: 5,478,076 (GRCm39)	S3564P	probably damaging	Het
Zfp467	T	G	6: 48,416,013 (GRCm39)	E213A	possibly damaging	Het
Zfp746	T	G	6: 48,041,411 (GRCm39)	K437N	probably damaging	Het
Zfp853	A	G	5: 143,274,840 (GRCm39)		probably benign	Het
Zranb1	T	A	7: 132,551,496 (GRCm39)	V49D	probably benign	Het

Other mutations in Lsamp

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL01665:Lsamp	APN	16	41,964,375 (GRCm39)	nonsense	probably null
IGL02869:Lsamp	APN	16	41,965,078 (GRCm39)	missense	probably benign	0.00
R0930:Lsamp	UTSW	16	41,709,327 (GRCm39)	missense	probably benign	0.25
R1147:Lsamp	UTSW	16	41,994,499 (GRCm39)	splice site	probably benign
R1170:Lsamp	UTSW	16	41,971,592 (GRCm39)	intron	probably benign
R1649:Lsamp	UTSW	16	41,775,661 (GRCm39)	missense	probably benign	0.00
R1976:Lsamp	UTSW	16	41,709,430 (GRCm39)	missense	probably damaging	0.99
R3613:Lsamp	UTSW	16	41,775,686 (GRCm39)	missense	probably benign	0.03
R3732:Lsamp	UTSW	16	41,964,935 (GRCm39)	missense	probably damaging	1.00
R3734:Lsamp	UTSW	16	41,965,133 (GRCm39)	missense	probably benign
R3838:Lsamp	UTSW	16	41,954,675 (GRCm39)	missense	possibly damaging	0.54
R3890:Lsamp	UTSW	16	39,805,054 (GRCm39)	missense	probably benign	0.01
R3891:Lsamp	UTSW	16	39,805,054 (GRCm39)	missense	probably benign	0.01
R4554:Lsamp	UTSW	16	41,964,438 (GRCm39)	missense	probably damaging	1.00
R4672:Lsamp	UTSW	16	41,775,697 (GRCm39)	missense	probably damaging	1.00
R5151:Lsamp	UTSW	16	41,954,792 (GRCm39)	missense	probably damaging	1.00
R5617:Lsamp	UTSW	16	41,954,786 (GRCm39)	missense	probably damaging	1.00
R6075:Lsamp	UTSW	16	41,954,788 (GRCm39)	missense	probably benign	0.19
R6217:Lsamp	UTSW	16	41,954,675 (GRCm39)	missense	possibly damaging	0.54
R6477:Lsamp	UTSW	16	41,988,528 (GRCm39)	intron	probably benign
R6637:Lsamp	UTSW	16	41,353,743 (GRCm39)	missense	possibly damaging	0.86
R8256:Lsamp	UTSW	16	41,965,007 (GRCm39)	missense	probably damaging	1.00
R8970:Lsamp	UTSW	16	41,994,528 (GRCm39)	missense	possibly damaging	0.95
R9606:Lsamp	UTSW	16	41,709,292 (GRCm39)	missense	probably benign	0.30
X0024:Lsamp	UTSW	16	41,964,921 (GRCm39)	missense	possibly damaging	0.77

Predicted Primers

PCR Primer
(F):5'- ACCCTTCATAGCACACCTGACTTTTATTATAC -3'
(R):5'- AGCCAAAATTATGGGAACTCTACACAACATT -3'

Sequencing Primer
(F):5'- ACAGTATCCTGGCTACTTAGCAG -3'
(R):5'- GGGAACTCTACACAACATTTATACTG -3'

Posted On

2014-05-09