Mutagenetix > Incidental Mutation

Incidental Mutation 'R1568:Virma'

175408

Institutional Source

Beutler Lab

Gene Symbol

Virma

Ensembl Gene

ENSMUSG00000040720

Gene Name

vir like m6A methyltransferase associated

Synonyms

1110037F02Rik

MMRRC Submission

039607-MU

Accession Numbers

Essential gene?

Essential (E-score: 1.000) question?

Stock #

R1568 (G1)

Quality Score

225

Status

Not validated

Chromosome

Chromosomal Location

11485958-11550684 bp(+) (GRCm39)

Type of Mutation

missense

DNA Base Change (assembly)

T to C at 11528776 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Serine to Proline at position 1288 (S1288P)

Ref Sequence

ENSEMBL: ENSMUSP00000058078 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000055372] [ENSMUST00000059914] [ENSMUST00000108307]

AlphaFold

A2AIV2

Predicted Effect

probably benign
Transcript: ENSMUST00000055372

SMART Domains

Protein: ENSMUSP00000063188
Gene: ENSMUSG00000040720

Domain	Start	End	E-Value	Type
low complexity region	139	153	N/A	INTRINSIC
low complexity region	172	198	N/A	INTRINSIC
low complexity region	236	267	N/A	INTRINSIC
low complexity region	276	297	N/A	INTRINSIC
low complexity region	615	625	N/A	INTRINSIC
low complexity region	1008	1020	N/A	INTRINSIC
low complexity region	1112	1124	N/A	INTRINSIC

Predicted Effect

probably damaging
Transcript: ENSMUST00000059914
AA Change: S1288P

PolyPhen 2 Score 0.993 (Sensitivity: 0.70; Specificity: 0.97)

SMART Domains

Protein: ENSMUSP00000058078
Gene: ENSMUSG00000040720
AA Change: S1288P

Domain	Start	End	E-Value	Type
low complexity region	139	153	N/A	INTRINSIC
low complexity region	172	198	N/A	INTRINSIC
low complexity region	236	267	N/A	INTRINSIC
low complexity region	276	297	N/A	INTRINSIC
low complexity region	615	625	N/A	INTRINSIC
low complexity region	1008	1020	N/A	INTRINSIC
low complexity region	1112	1124	N/A	INTRINSIC
low complexity region	1224	1232	N/A	INTRINSIC
low complexity region	1443	1458	N/A	INTRINSIC
low complexity region	1460	1474	N/A	INTRINSIC
low complexity region	1618	1634	N/A	INTRINSIC
low complexity region	1684	1697	N/A	INTRINSIC
low complexity region	1750	1757	N/A	INTRINSIC
low complexity region	1796	1808	N/A	INTRINSIC

Predicted Effect

probably damaging
Transcript: ENSMUST00000108307
AA Change: S1338P

PolyPhen 2 Score 0.990 (Sensitivity: 0.72; Specificity: 0.97)

SMART Domains

Protein: ENSMUSP00000103943
Gene: ENSMUSG00000040720
AA Change: S1338P

Domain	Start	End	E-Value	Type
Pfam:VIR_N	5	266	2e-110	PFAM
low complexity region	276	297	N/A	INTRINSIC
low complexity region	615	625	N/A	INTRINSIC
low complexity region	1058	1070	N/A	INTRINSIC
low complexity region	1162	1174	N/A	INTRINSIC
low complexity region	1274	1282	N/A	INTRINSIC
low complexity region	1493	1508	N/A	INTRINSIC
low complexity region	1510	1524	N/A	INTRINSIC
low complexity region	1668	1684	N/A	INTRINSIC
low complexity region	1734	1747	N/A	INTRINSIC
low complexity region	1800	1807	N/A	INTRINSIC
low complexity region	1846	1858	N/A	INTRINSIC

Coding Region Coverage

1x: 99.1%
3x: 98.2%
10x: 95.8%
20x: 90.9%

Validation Efficiency

Allele List at MGI

Other mutations in this stock

Total: 61 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
Adam18	T	G	8: 25,137,799 (GRCm39)		probably null	Het
Adgb	A	T	10: 10,318,409 (GRCm39)	Y138*	probably null	Het
Adra1d	T	C	2: 131,388,092 (GRCm39)	R488G	possibly damaging	Het
Ahnak	G	A	19: 8,979,739 (GRCm39)	G341E	probably damaging	Het
Ankmy1	T	C	1: 92,808,838 (GRCm39)	D690G	probably damaging	Het
Arhgef38	C	T	3: 132,838,225 (GRCm39)	E21K	probably damaging	Het
Atp8b2	T	C	3: 89,857,155 (GRCm39)	M402V	probably damaging	Het
Atp8b4	G	T	2: 126,167,314 (GRCm39)	H1062N	probably benign	Het
Bdnf	A	G	2: 109,554,139 (GRCm39)	H131R	probably damaging	Het
Cblb	C	T	16: 51,956,192 (GRCm39)	T265M	probably damaging	Het
Cenpe	T	A	3: 134,945,519 (GRCm39)	M1011K	probably benign	Het
Clca3a2	A	T	3: 144,781,410 (GRCm39)	Y711*	probably null	Het
Clca4a	A	G	3: 144,658,690 (GRCm39)	Y842H	probably benign	Het
Clspn	T	A	4: 126,475,310 (GRCm39)	M1021K	probably benign	Het
Cpne8	G	T	15: 90,503,845 (GRCm39)	R107S	probably damaging	Het
D6Ertd527e	C	G	6: 87,088,506 (GRCm39)	T223S	unknown	Het
Dna2	C	T	10: 62,784,966 (GRCm39)	R28W	probably benign	Het
Dnah5	T	A	15: 28,409,323 (GRCm39)	N3580K	probably damaging	Het
Dsp	T	C	13: 38,359,123 (GRCm39)	I298T	probably damaging	Het
Dync2h1	T	C	9: 7,157,553 (GRCm39)	K858R	probably null	Het
Fasn	A	T	11: 120,704,075 (GRCm39)	V1448E	possibly damaging	Het
Ghdc	A	G	11: 100,659,331 (GRCm39)	I322T	probably benign	Het
Gins2	T	C	8: 121,308,939 (GRCm39)	D105G	probably damaging	Het
Insr	A	T	8: 3,215,576 (GRCm39)	D975E	probably benign	Het
Klrc3	T	C	6: 129,616,510 (GRCm39)	D169G	probably benign	Het
Krt76	T	A	15: 101,793,443 (GRCm39)	S532C	unknown	Het
Lamp3	A	T	16: 19,492,275 (GRCm39)	M323K	probably damaging	Het
Lgmn	T	C	12: 102,360,868 (GRCm39)	I423M	possibly damaging	Het
Lpgat1	A	T	1: 191,508,538 (GRCm39)	T359S	possibly damaging	Het
Lrguk	T	A	6: 34,063,373 (GRCm39)	I466N	probably damaging	Het
Magi3	A	C	3: 103,996,843 (GRCm39)	M234R	probably benign	Het
Myh14	G	A	7: 44,261,122 (GRCm39)	R1042*	probably null	Het
Nfia	T	G	4: 97,999,461 (GRCm39)	Y378D	possibly damaging	Het
Npffr1	T	A	10: 61,462,012 (GRCm39)	S383T	possibly damaging	Het
Or4f57	C	A	2: 111,790,585 (GRCm39)	V278F	probably benign	Het
Or52n4	T	A	7: 104,293,977 (GRCm39)	I199F	probably benign	Het
Or5b112	C	A	19: 13,319,539 (GRCm39)	P139Q	probably benign	Het
Or9s14	T	C	1: 92,535,676 (GRCm39)	L39P	probably damaging	Het
Osr1	G	A	12: 9,629,798 (GRCm39)		probably null	Het
Pde4b	A	C	4: 102,454,896 (GRCm39)	R375S	probably damaging	Het
Pde8a	A	G	7: 80,942,011 (GRCm39)	E150G	probably damaging	Het
Pkhd1l1	A	T	15: 44,408,897 (GRCm39)		probably null	Het
Ppp3ca	A	G	3: 136,634,305 (GRCm39)	T422A	probably benign	Het
Proser1	T	C	3: 53,385,180 (GRCm39)	V354A	possibly damaging	Het
Rgs20	G	T	1: 5,091,050 (GRCm39)	R127S	probably benign	Het
Sanbr	T	C	11: 23,539,971 (GRCm39)	K48E	probably damaging	Het
Sec22a	T	C	16: 35,167,998 (GRCm39)	D171G	probably benign	Het
Secisbp2	A	G	13: 51,827,143 (GRCm39)	E417G	possibly damaging	Het
Serpinb6b	T	C	13: 33,158,895 (GRCm39)	L32S	probably damaging	Het
Sf3b1	C	G	1: 55,058,554 (GRCm39)	E12Q	possibly damaging	Het
Slc39a10	A	T	1: 46,865,375 (GRCm39)	S487T	probably benign	Het
Slc6a1	G	T	6: 114,284,731 (GRCm39)	G263V	probably damaging	Het
Spag6	A	G	2: 18,737,925 (GRCm39)	D265G	probably benign	Het
Spata31e2	T	C	1: 26,724,950 (GRCm39)	T77A	probably benign	Het
Sybu	G	T	15: 44,582,228 (GRCm39)	S132*	probably null	Het
Vmn1r229	T	A	17: 21,035,067 (GRCm39)	V104D	probably damaging	Het
Vmn1r238	T	C	18: 3,123,358 (GRCm39)	T19A	probably benign	Het
Vmn2r86	C	T	10: 130,289,010 (GRCm39)	V164I	probably benign	Het
Wfdc13	G	T	2: 164,528,854 (GRCm39)	A64S	probably damaging	Het
Zfp873	C	A	10: 81,896,113 (GRCm39)	H318Q	probably damaging	Het
Zyg11a	A	G	4: 108,040,843 (GRCm39)		probably null	Het

Other mutations in Virma

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL00428:Virma	APN	4	11,519,424 (GRCm39)	splice site	probably benign
IGL00477:Virma	APN	4	11,519,006 (GRCm39)	missense	probably damaging	0.99
IGL01293:Virma	APN	4	11,521,114 (GRCm39)	missense	probably damaging	1.00
IGL01410:Virma	APN	4	11,518,929 (GRCm39)	nonsense	probably null
IGL01531:Virma	APN	4	11,528,753 (GRCm39)	missense	probably damaging	1.00
IGL01672:Virma	APN	4	11,527,792 (GRCm39)	missense	probably damaging	1.00
IGL01724:Virma	APN	4	11,528,672 (GRCm39)	missense	probably damaging	1.00
IGL01747:Virma	APN	4	11,526,877 (GRCm39)	missense	probably damaging	1.00
IGL01776:Virma	APN	4	11,527,792 (GRCm39)	missense	probably damaging	1.00
IGL02064:Virma	APN	4	11,513,163 (GRCm39)	missense	possibly damaging	0.87
IGL02243:Virma	APN	4	11,546,031 (GRCm39)	missense	probably damaging	1.00
IGL02244:Virma	APN	4	11,546,031 (GRCm39)	missense	probably damaging	1.00
IGL02445:Virma	APN	4	11,527,029 (GRCm39)	missense	probably damaging	0.97
IGL02546:Virma	APN	4	11,494,804 (GRCm39)	missense	probably damaging	0.99
IGL02807:Virma	APN	4	11,507,079 (GRCm39)	splice site	probably benign
IGL02967:Virma	APN	4	11,514,096 (GRCm39)	missense	probably benign	0.01
IGL03211:Virma	APN	4	11,548,770 (GRCm39)	nonsense	probably null
IGL03242:Virma	APN	4	11,527,669 (GRCm39)	missense	possibly damaging	0.70
IGL03256:Virma	APN	4	11,542,207 (GRCm39)	splice site	probably benign
IGL03327:Virma	APN	4	11,518,984 (GRCm39)	missense	probably benign	0.00
IGL03346:Virma	APN	4	11,518,984 (GRCm39)	missense	probably benign	0.00
PIT4802001:Virma	UTSW	4	11,546,008 (GRCm39)	missense	probably damaging	0.99
R0142:Virma	UTSW	4	11,548,783 (GRCm39)	missense	probably benign	0.04
R0355:Virma	UTSW	4	11,528,626 (GRCm39)	nonsense	probably null
R0522:Virma	UTSW	4	11,519,416 (GRCm39)	critical splice donor site	probably null
R0600:Virma	UTSW	4	11,498,769 (GRCm39)	missense	probably damaging	0.99
R1435:Virma	UTSW	4	11,528,621 (GRCm39)	missense	probably damaging	1.00
R1489:Virma	UTSW	4	11,521,164 (GRCm39)	missense	probably damaging	1.00
R1616:Virma	UTSW	4	11,544,954 (GRCm39)	missense	probably damaging	1.00
R1655:Virma	UTSW	4	11,494,786 (GRCm39)	missense	probably damaging	1.00
R1695:Virma	UTSW	4	11,494,814 (GRCm39)	missense	probably damaging	0.98
R1835:Virma	UTSW	4	11,540,511 (GRCm39)	missense	probably benign	0.02
R1951:Virma	UTSW	4	11,513,907 (GRCm39)	missense	probably benign	0.00
R1991:Virma	UTSW	4	11,519,242 (GRCm39)	missense	probably benign	0.06
R2145:Virma	UTSW	4	11,548,726 (GRCm39)	splice site	probably benign
R2172:Virma	UTSW	4	11,527,843 (GRCm39)	missense	possibly damaging	0.82
R2217:Virma	UTSW	4	11,544,924 (GRCm39)	missense	probably damaging	1.00
R2218:Virma	UTSW	4	11,544,924 (GRCm39)	missense	probably damaging	1.00
R2248:Virma	UTSW	4	11,518,927 (GRCm39)	missense	probably damaging	1.00
R2342:Virma	UTSW	4	11,501,316 (GRCm39)	missense	probably damaging	1.00
R3424:Virma	UTSW	4	11,513,177 (GRCm39)	nonsense	probably null
R4397:Virma	UTSW	4	11,513,901 (GRCm39)	missense	possibly damaging	0.81
R4449:Virma	UTSW	4	11,498,828 (GRCm39)	critical splice donor site	probably null
R4660:Virma	UTSW	4	11,513,505 (GRCm39)	missense	probably damaging	1.00
R4698:Virma	UTSW	4	11,528,636 (GRCm39)	missense	probably damaging	0.99
R4878:Virma	UTSW	4	11,544,971 (GRCm39)	missense	probably damaging	1.00
R4937:Virma	UTSW	4	11,521,147 (GRCm39)	nonsense	probably null
R5031:Virma	UTSW	4	11,542,116 (GRCm39)	nonsense	probably null
R5040:Virma	UTSW	4	11,528,746 (GRCm39)	missense	probably benign	0.01
R5061:Virma	UTSW	4	11,494,840 (GRCm39)	missense	possibly damaging	0.95
R5091:Virma	UTSW	4	11,519,392 (GRCm39)	missense	probably benign	0.00
R5137:Virma	UTSW	4	11,546,297 (GRCm39)	missense	probably damaging	1.00
R5262:Virma	UTSW	4	11,539,926 (GRCm39)	missense	probably benign	0.01
R5297:Virma	UTSW	4	11,494,819 (GRCm39)	missense	probably damaging	1.00
R5730:Virma	UTSW	4	11,542,154 (GRCm39)	missense	probably benign	0.44
R5818:Virma	UTSW	4	11,513,319 (GRCm39)	missense	possibly damaging	0.92
R5835:Virma	UTSW	4	11,514,036 (GRCm39)	missense	probably damaging	1.00
R6125:Virma	UTSW	4	11,521,172 (GRCm39)	missense	probably damaging	0.98
R6197:Virma	UTSW	4	11,505,498 (GRCm39)	missense	probably damaging	0.96
R6222:Virma	UTSW	4	11,527,820 (GRCm39)	missense	probably damaging	1.00
R6793:Virma	UTSW	4	11,539,968 (GRCm39)	missense	probably damaging	1.00
R7028:Virma	UTSW	4	11,519,249 (GRCm39)	missense	possibly damaging	0.50
R7356:Virma	UTSW	4	11,513,595 (GRCm39)	missense	probably damaging	0.99
R7383:Virma	UTSW	4	11,514,026 (GRCm39)	missense	probably damaging	0.98
R7391:Virma	UTSW	4	11,508,099 (GRCm39)	missense	probably damaging	0.99
R7425:Virma	UTSW	4	11,546,211 (GRCm39)	missense	possibly damaging	0.95
R7556:Virma	UTSW	4	11,518,927 (GRCm39)	missense	probably damaging	1.00
R7715:Virma	UTSW	4	11,513,016 (GRCm39)	splice site	probably null
R7715:Virma	UTSW	4	11,549,682 (GRCm39)	missense	probably damaging	1.00
R7986:Virma	UTSW	4	11,540,023 (GRCm39)	missense	probably benign	0.01
R7990:Virma	UTSW	4	11,513,983 (GRCm39)	missense	probably benign	0.00
R8048:Virma	UTSW	4	11,539,918 (GRCm39)	nonsense	probably null
R8050:Virma	UTSW	4	11,528,643 (GRCm39)	missense	probably benign	0.22
R8165:Virma	UTSW	4	11,542,128 (GRCm39)	missense	probably benign	0.00
R8412:Virma	UTSW	4	11,521,261 (GRCm39)	critical splice donor site	probably null
R8544:Virma	UTSW	4	11,516,949 (GRCm39)	missense	probably benign
R8551:Virma	UTSW	4	11,513,397 (GRCm39)	missense	probably damaging	1.00
R8699:Virma	UTSW	4	11,528,678 (GRCm39)	missense	probably benign	0.04
R8739:Virma	UTSW	4	11,540,643 (GRCm39)	critical splice donor site	probably null
R8950:Virma	UTSW	4	11,519,047 (GRCm39)	nonsense	probably null
R9015:Virma	UTSW	4	11,540,494 (GRCm39)	missense	probably benign	0.27
R9038:Virma	UTSW	4	11,526,922 (GRCm39)	missense	possibly damaging	0.93
R9115:Virma	UTSW	4	11,498,744 (GRCm39)	missense	probably benign	0.15
R9294:Virma	UTSW	4	11,513,507 (GRCm39)	nonsense	probably null
R9404:Virma	UTSW	4	11,513,626 (GRCm39)	missense	probably benign	0.17
R9477:Virma	UTSW	4	11,528,753 (GRCm39)	missense	probably damaging	1.00
R9532:Virma	UTSW	4	11,507,078 (GRCm39)	critical splice donor site	probably null
R9649:Virma	UTSW	4	11,486,045 (GRCm39)	start codon destroyed	probably null	0.08
R9657:Virma	UTSW	4	11,544,898 (GRCm39)	missense	probably damaging	0.99
R9780:Virma	UTSW	4	11,513,442 (GRCm39)	missense	possibly damaging	0.75
R9800:Virma	UTSW	4	11,546,007 (GRCm39)	missense	probably damaging	0.99
X0020:Virma	UTSW	4	11,486,055 (GRCm39)	missense	probably benign	0.00

Predicted Primers

PCR Primer
(F):5'- TGCCCTGGCTTCACACAAAGCTTG -3'
(R):5'- TGGAAGGAGAACCCCTGTCTCATGAC -3'

Sequencing Primer
(F):5'- GGCTTCACACAAAGCTTGTAAATTAG -3'
(R):5'- ttaatatcgggaattaaaggtcagc -3'

Posted On

2014-04-24