Mutagenetix > Incidental Mutation

Incidental Mutation 'R8165:Virma'

633709

Institutional Source

Beutler Lab

Gene Symbol

Virma

Ensembl Gene

ENSMUSG00000040720

Gene Name

vir like m6A methyltransferase associated

Synonyms

1110037F02Rik

MMRRC Submission

067591-MU

Accession Numbers

Essential gene?

Essential (E-score: 1.000) question?

Stock #

R8165 (G1)

Quality Score

225.009

Status

Validated

Chromosome

Chromosomal Location

11485958-11550684 bp(+) (GRCm39)

Type of Mutation

missense

DNA Base Change (assembly)

T to A at 11542128 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Aspartic acid to Glutamic Acid at position 1521 (D1521E)

Ref Sequence

ENSEMBL: ENSMUSP00000058078 (fasta)

Gene Model

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

AlphaFold

A2AIV2

Predicted Effect

probably benign
Transcript: ENSMUST00000059914
AA Change: D1521E

PolyPhen 2 Score 0.001 (Sensitivity: 0.99; Specificity: 0.15)

SMART Domains

Protein: ENSMUSP00000058078
Gene: ENSMUSG00000040720
AA Change: D1521E

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 benign
Transcript: ENSMUST00000108307
AA Change: D1571E

PolyPhen 2 Score 0.010 (Sensitivity: 0.96; Specificity: 0.77)

SMART Domains

Protein: ENSMUSP00000103943
Gene: ENSMUSG00000040720
AA Change: D1571E

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: 100.0%
3x: 99.9%
10x: 99.6%
20x: 98.7%

Validation Efficiency

100% (65/65)

Allele List at MGI

Other mutations in this stock

Total: 62 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
0610040J01Rik	C	A	5: 64,055,289 (GRCm39)		probably null	Het
Amph	A	G	13: 19,279,007 (GRCm39)	K161E	probably benign	Het
Aox1	A	T	1: 58,348,088 (GRCm39)	H602L	probably benign	Het
Areg	A	G	5: 91,291,492 (GRCm39)	N145S	probably damaging	Het
Arhgap29	C	T	3: 121,782,222 (GRCm39)	T142I	probably damaging	Het
Bcar3	C	T	3: 122,304,805 (GRCm39)		probably benign	Het
Brpf3	C	T	17: 29,025,248 (GRCm39)	A107V	probably benign	Het
Btnl2	T	A	17: 34,587,682 (GRCm39)	S509T	possibly damaging	Het
Cacna2d2	A	G	9: 107,402,653 (GRCm39)		probably null	Het
Casz1	C	T	4: 149,028,888 (GRCm39)	P1111L	probably damaging	Het
Ccdc91	C	T	6: 147,533,086 (GRCm39)	T411I	unknown	Het
Chd9	A	C	8: 91,767,769 (GRCm39)	E2422A	probably damaging	Het
Clrn3	T	C	7: 135,130,133 (GRCm39)	I34V	probably benign	Het
Cnksr3	C	T	10: 7,104,467 (GRCm39)	D79N	probably damaging	Het
Cops8	A	G	1: 90,539,729 (GRCm39)		probably null	Het
Cpa2	A	G	6: 30,564,345 (GRCm39)	K392R	probably benign	Het
Dnajc28	G	A	16: 91,413,795 (GRCm39)	R150*	probably null	Het
Dnase1l3	T	C	14: 7,994,299 (GRCm38)		probably benign	Het
Gdpd5	A	T	7: 99,105,689 (GRCm39)	T502S	probably benign	Het
Gp2	A	T	7: 119,049,375 (GRCm39)	D387E	probably damaging	Het
Gpr179	A	G	11: 97,242,364 (GRCm39)	L160P	probably benign	Het
Hmcn1	G	A	1: 150,522,409 (GRCm39)	T3497M	probably benign	Het
Idh3b	T	A	2: 130,122,420 (GRCm39)	T322S	possibly damaging	Het
Kit	A	T	5: 75,781,540 (GRCm39)	N323I	possibly damaging	Het
Kng2	T	C	16: 22,806,246 (GRCm39)	S445G	unknown	Het
Lin54	A	G	5: 100,602,358 (GRCm39)	V393A	probably benign	Het
Lyst	T	A	13: 13,872,945 (GRCm39)	W2715R	probably damaging	Het
Mad1l1	T	C	5: 140,300,813 (GRCm39)	T28A	probably benign	Het
Med7	T	A	11: 46,332,073 (GRCm39)	C223S	probably benign	Het
Megf8	T	A	7: 25,053,298 (GRCm39)	L1823Q	probably damaging	Het
Mga	C	A	2: 119,777,719 (GRCm39)	Q1755K	probably benign	Het
Mgat4b	A	T	11: 50,101,801 (GRCm39)	N22I	probably benign	Het
Ndufb6	C	T	4: 40,270,665 (GRCm39)		probably null	Het
Neil3	A	G	8: 54,042,129 (GRCm39)	L490P	probably benign	Het
Nek9	C	T	12: 85,350,417 (GRCm39)	V886I	probably benign	Het
Nol4l	A	T	2: 153,262,473 (GRCm39)	Y366*	probably null	Het
Nt5dc2	A	G	14: 30,860,886 (GRCm39)	T354A	probably damaging	Het
Or1j11	T	A	2: 36,311,715 (GRCm39)	Y102N	probably damaging	Het
Pde2a	G	A	7: 101,149,655 (GRCm39)		probably null	Het
Phf1	T	C	17: 27,156,044 (GRCm39)	F444L	possibly damaging	Het
Plin4	G	A	17: 56,414,019 (GRCm39)	T202I	possibly damaging	Het
Plk4	G	C	3: 40,768,009 (GRCm39)	V851L	probably damaging	Het
Pp2d1	A	G	17: 53,822,257 (GRCm39)	S270P	probably damaging	Het
Ripor1	C	A	8: 106,347,520 (GRCm39)	L1028M	unknown	Het
Scn9a	A	G	2: 66,370,874 (GRCm39)	F569L	probably damaging	Het
Sel1l2	T	A	2: 140,104,626 (GRCm39)	L306F	probably damaging	Het
Spic	A	T	10: 88,513,428 (GRCm39)	S86T	probably damaging	Het
Spmip10	T	A	18: 56,722,547 (GRCm39)		probably benign	Het
Stkld1	A	G	2: 26,836,668 (GRCm39)	N278S	probably benign	Het
Taar7d	T	A	10: 23,903,495 (GRCm39)	F126I	probably benign	Het
Tbc1d31	A	G	15: 57,824,345 (GRCm39)	E869G	possibly damaging	Het
Tbcd	C	T	11: 121,384,711 (GRCm39)	T315M	probably benign	Het
Terf2	T	C	8: 107,809,656 (GRCm39)	K221E	possibly damaging	Het
Thsd7a	T	A	6: 12,468,962 (GRCm39)	T539S		Het
Tll2	A	G	19: 41,077,313 (GRCm39)	F818L	possibly damaging	Het
Tmem87a	T	C	2: 120,200,959 (GRCm39)	T427A	possibly damaging	Het
Ush2a	C	A	1: 188,183,952 (GRCm39)	Q1419K	possibly damaging	Het
Vill	T	A	9: 118,895,821 (GRCm39)	F511Y	probably damaging	Het
Vps13c	A	G	9: 67,766,072 (GRCm39)	D63G	probably benign	Het
Vrk2	A	G	11: 26,485,575 (GRCm39)	F138L	probably benign	Het
Zfp710	T	C	7: 79,735,775 (GRCm39)	I514T	probably damaging	Het
Zgrf1	T	A	3: 127,357,032 (GRCm39)	F753I	possibly damaging	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
R1568:Virma	UTSW	4	11,528,776 (GRCm39)	missense	probably damaging	0.99
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
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'- CACCGGGTTTGTTTTCTGAATC -3'
(R):5'- ACAGAGAGAACATGAATTTGTCCTC -3'

Sequencing Primer
(F):5'- CCGGGTTTGTTTTCTGAATCTTTGAC -3'
(R):5'- TCCTCAAATGGACCTGAAGTG -3'

Posted On

2020-07-13