Mutagenetix > Incidental Mutations

Incidental Mutation 'R0650:Lrrc28'

62208

Institutional Source

Beutler Lab

Gene Symbol

Lrrc28

Ensembl Gene

ENSMUSG00000030556

Gene Name

leucine rich repeat containing 28

Synonyms

2210012C09Rik, 1300004K21Rik, 2310058O11Rik

MMRRC Submission

038835-MU

Accession Numbers

Is this an essential gene?

Probably non essential (E-score: 0.137) question?

Stock #

R0650 (G1)

Quality Score

215

Status

Validated

Chromosome

Chromosomal Location

67513410-67645268 bp(-) (GRCm38)

Type of Mutation

missense

DNA Base Change (assembly)

T to C at 67618085 bp (GRCm38)

Zygosity

Heterozygous

Amino Acid Change

Asparagine to Serine at position 98 (N98S)

Ref Sequence

ENSEMBL: ENSMUSP00000052177 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000032775] [ENSMUST00000053950] [ENSMUST00000187953] [ENSMUST00000189836] [ENSMUST00000190276] [ENSMUST00000191035]

AlphaFold

Q3TX51

Predicted Effect

probably benign
Transcript: ENSMUST00000032775
AA Change: N98S

PolyPhen 2 Score 0.024 (Sensitivity: 0.95; Specificity: 0.81)

SMART Domains

Protein: ENSMUSP00000032775
Gene: ENSMUSG00000030556
AA Change: N98S

Domain	Start	End	E-Value	Type
LRR	40	63	1.33e-1	SMART
LRR	64	86	3.24e0	SMART
LRR	87	109	1.06e1	SMART
LRR_TYP	110	132	7.78e-3	SMART

Predicted Effect

probably damaging
Transcript: ENSMUST00000053950
AA Change: N98S

PolyPhen 2 Score 0.999 (Sensitivity: 0.14; Specificity: 0.99)

SMART Domains

Protein: ENSMUSP00000052177
Gene: ENSMUSG00000030556
AA Change: N98S

Domain	Start	End	E-Value	Type
LRR	40	63	1.33e-1	SMART
LRR	64	86	3.24e0	SMART
LRR	87	109	1.06e1	SMART
LRR_TYP	110	132	6.67e-2	SMART
LRR	133	156	6.4e0	SMART
LRR	179	202	1.64e-1	SMART
low complexity region	304	318	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000187953

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000188971

Predicted Effect

probably benign
Transcript: ENSMUST00000189836
AA Change: N107S

PolyPhen 2 Score 0.301 (Sensitivity: 0.90; Specificity: 0.89)

SMART Domains

Protein: ENSMUSP00000139606
Gene: ENSMUSG00000030556
AA Change: N107S

Domain	Start	End	E-Value	Type
Pfam:LRR_1	42	64	5.5e-2	PFAM

Predicted Effect

possibly damaging
Transcript: ENSMUST00000190276
AA Change: N98S

PolyPhen 2 Score 0.598 (Sensitivity: 0.87; Specificity: 0.91)

SMART Domains

Protein: ENSMUSP00000140972
Gene: ENSMUSG00000030556
AA Change: N98S

Domain	Start	End	E-Value	Type
LRR	40	59	3.7e-3	SMART
LRR	64	83	1.2e0	SMART
LRR	87	109	4.4e-2	SMART
LRR_TYP	110	133	2.3e-6	SMART
LRR	133	153	1.1e0	SMART

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000190770

Predicted Effect

probably benign
Transcript: ENSMUST00000191035
AA Change: N98S

PolyPhen 2 Score 0.158 (Sensitivity: 0.92; Specificity: 0.87)

SMART Domains

Protein: ENSMUSP00000140382
Gene: ENSMUSG00000030556
AA Change: N98S

Domain	Start	End	E-Value	Type
LRR	40	63	1.33e-1	SMART
LRR	64	86	3.24e0	SMART
LRR	87	109	1.06e1	SMART
LRR	110	132	8.09e-1	SMART

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000191386

Meta Mutation Damage Score

0.4969

Coding Region Coverage

1x: 99.5%
3x: 99.0%
10x: 97.8%
20x: 96.0%

Validation Efficiency

99% (77/78)

Allele List at MGI

Other mutations in this stock

Total: 71 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
1700020N15Rik	A	G	X: 69,945,785	S96G	unknown	Het
4930447C04Rik	T	C	12: 72,910,056	D120G	probably damaging	Het
4930548H24Rik	T	C	5: 31,485,968		probably benign	Het
Adgrg5	T	A	8: 94,934,157		probably null	Het
Afg3l2	G	T	18: 67,415,557	H534Q	possibly damaging	Het
Ankar	G	A	1: 72,656,221		probably benign	Het
Arid2	T	A	15: 96,402,049	F1814L	possibly damaging	Het
Asb15	C	T	6: 24,566,164	A372V	probably damaging	Het
Atg16l1	A	T	1: 87,781,699	D403V	possibly damaging	Het
BC024978	A	T	7: 27,202,647	H233L	probably damaging	Het
Bnc2	T	C	4: 84,293,196	D407G	probably benign	Het
Cdan1	A	G	2: 120,726,045	V633A	probably benign	Het
Cfap46	T	C	7: 139,605,655	Y2482C	unknown	Het
Chd8	T	C	14: 52,202,304	E964G	probably benign	Het
Cyp2s1	A	G	7: 25,809,258	V253A	probably damaging	Het
Depdc1b	A	G	13: 108,323,909	N18D	probably damaging	Het
Fis1	T	A	5: 136,962,194	V4E	probably damaging	Het
Gba2	T	A	4: 43,570,424		probably null	Het
Gm2381	C	T	7: 42,820,080	G207R	probably damaging	Het
Gpr89	T	A	3: 96,897,324		probably benign	Het
Gtf2i	A	G	5: 134,261,837		probably benign	Het
Herc2	T	G	7: 56,113,210	S896A	probably damaging	Het
Huwe1	T	C	X: 151,876,313	S921P	probably damaging	Het
Iqgap1	T	A	7: 80,736,395	K936I	probably damaging	Het
Kcna4	T	A	2: 107,295,582	Y220*	probably null	Het
Krt18	A	G	15: 102,029,485	D139G	possibly damaging	Het
Krt83	T	C	15: 101,487,040	N392D	probably damaging	Het
L3mbtl4	G	A	17: 68,774,291	C558Y	probably damaging	Het
Lamc2	T	A	1: 153,143,876	I440F	possibly damaging	Het
Lrrk1	G	A	7: 66,292,336	A718V	probably damaging	Het
Mrgprx2	T	C	7: 48,482,918	I51V	probably damaging	Het
Myt1	A	T	2: 181,782,615	R25*	probably null	Het
Npdc1	C	T	2: 25,408,009	T199I	probably benign	Het
Nup98	T	A	7: 102,152,453	Y755F	probably damaging	Het
Olfr494	T	A	7: 108,367,789	C100S	probably damaging	Het
Olfr502	G	T	7: 108,523,082	N289K	probably damaging	Het
Olfr638	A	G	7: 104,003,239		probably null	Het
Olfr936	T	A	9: 39,046,700	M240L	probably benign	Het
Osgin1	A	T	8: 119,445,472	Y335F	probably damaging	Het
Pde10a	A	T	17: 8,942,965	I493F	probably damaging	Het
Pdgfrb	A	G	18: 61,079,708	I895V	probably benign	Het
Peg10	T	TCCCCANNANNNN	6: 4,756,475		probably benign	Het
Pidd1	A	T	7: 141,440,813	L457*	probably null	Het
Pik3c2a	A	G	7: 116,346,247		probably benign	Het
Pkd1l3	C	G	8: 109,623,649	D375E	possibly damaging	Het
Plcg1	C	T	2: 160,753,363		probably benign	Het
Prr13	A	C	15: 102,462,215	*138C	probably null	Het
Prrc2b	T	C	2: 32,229,255		probably benign	Het
Psph	T	C	5: 129,791,570		probably benign	Het
Ripor1	A	G	8: 105,618,114		probably benign	Het
Scg3	A	G	9: 75,669,335	S253P	probably damaging	Het
Sema6a	G	A	18: 47,290,045		probably null	Het
Sgk1	A	G	10: 21,882,657	N7D	probably damaging	Het
Skor2	T	C	18: 76,876,560	F940L	probably benign	Het
Slbp	T	C	5: 33,645,489		probably benign	Het
Snrnp40	C	G	4: 130,378,043		probably null	Het
Susd5	A	T	9: 114,082,535	H171L	possibly damaging	Het
Sybu	T	C	15: 44,673,268	E354G	probably benign	Het
Synpo	T	C	18: 60,602,340	N845D	possibly damaging	Het
Tdrd6	A	T	17: 43,628,159	I666N	probably damaging	Het
Tm9sf4	T	C	2: 153,187,365	I111T	probably benign	Het
Tnc	T	C	4: 64,008,734	T852A	probably benign	Het
Tnfrsf10b	T	A	14: 69,776,176	I185K	probably damaging	Het
Tnks1bp1	A	G	2: 85,062,630	E305G	possibly damaging	Het
Tnrc6b	T	C	15: 80,784,758	V22A	probably benign	Het
Ttn	A	T	2: 76,768,612	F19319Y	probably damaging	Het
Ubr5	T	C	15: 38,030,807		probably benign	Het
Ugt2b5	T	A	5: 87,139,768	Q191L	probably benign	Het
Urod	T	C	4: 116,991,276	T300A	probably benign	Het
Vmn1r213	A	G	13: 23,011,394		probably benign	Het
Znfx1	G	A	2: 167,047,654	Q723*	probably null	Het

Other mutations in Lrrc28

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL01548:Lrrc28	APN	7	67628294	critical splice donor site	probably null
IGL01583:Lrrc28	APN	7	67545475	splice site	probably null
IGL02033:Lrrc28	APN	7	67559857	critical splice donor site	probably null
IGL02483:Lrrc28	APN	7	67617983	splice site	probably benign
IGL02750:Lrrc28	APN	7	67531683	missense	probably damaging	0.96
BB002:Lrrc28	UTSW	7	67619109	missense	probably damaging	1.00
BB012:Lrrc28	UTSW	7	67619109	missense	probably damaging	1.00
R0549:Lrrc28	UTSW	7	67628342	splice site	probably benign
R0563:Lrrc28	UTSW	7	67545387	missense	probably damaging	1.00
R0652:Lrrc28	UTSW	7	67618085	missense	probably damaging	1.00
R1557:Lrrc28	UTSW	7	67559929	missense	probably damaging	1.00
R1820:Lrrc28	UTSW	7	67641111	missense	probably damaging	0.98
R2149:Lrrc28	UTSW	7	67531682	missense	probably damaging	0.96
R2185:Lrrc28	UTSW	7	67545453	missense	possibly damaging	0.70
R4479:Lrrc28	UTSW	7	67531614	critical splice donor site	probably null
R5205:Lrrc28	UTSW	7	67531768	missense	probably benign	0.00
R7008:Lrrc28	UTSW	7	67595711	intron	probably benign
R7925:Lrrc28	UTSW	7	67619109	missense	probably damaging	1.00
R8323:Lrrc28	UTSW	7	67595707	missense	unknown
R8360:Lrrc28	UTSW	7	67641161	missense	probably benign	0.01
R8898:Lrrc28	UTSW	7	67628294	critical splice donor site	probably null
R8919:Lrrc28	UTSW	7	67619085	missense	possibly damaging	0.88
R9412:Lrrc28	UTSW	7	67531764	missense	probably damaging	1.00
Z1088:Lrrc28	UTSW	7	67529631	missense	possibly damaging	0.89

Predicted Primers

PCR Primer
(F):5'- CCTTGCCCAGCAGTGAGAAGAGTG -3'
(R):5'- ATCTGAGGTGGGCTCCTGTGTCTCC -3'

Sequencing Primer
(F):5'- ATTTACACCGGGTTCTCAGAACG -3'
(R):5'- TTTATCTCAAGAGATGCTTTCCAC -3'

Posted On

2013-07-30