Incidental Mutation 'R5262:Virma'
ID 401486
Institutional Source Beutler Lab
Gene Symbol Virma
Ensembl Gene ENSMUSG00000040720
Gene Name vir like m6A methyltransferase associated
Synonyms 1110037F02Rik
MMRRC Submission 042857-MU
Accession Numbers
Essential gene? Essential (E-score: 1.000) question?
Stock # R5262 (G1)
Quality Score 225
Status Validated
Chromosome 4
Chromosomal Location 11485958-11550684 bp(+) (GRCm39)
Type of Mutation missense
DNA Base Change (assembly) A to T at 11539926 bp (GRCm39)
Zygosity Heterozygous
Amino Acid Change Aspartic acid to Valine at position 1465 (D1465V)
Ref Sequence ENSEMBL: ENSMUSP00000103943 (fasta)
Gene Model predicted gene model for transcript(s): [ENSMUST00000059914] [ENSMUST00000108307]
AlphaFold A2AIV2
Predicted Effect probably benign
Transcript: ENSMUST00000059914
AA Change: D1415V

PolyPhen 2 Score 0.002 (Sensitivity: 0.99; Specificity: 0.30)
SMART Domains Protein: ENSMUSP00000058078
Gene: ENSMUSG00000040720
AA Change: D1415V

DomainStartEndE-ValueType
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: D1465V

PolyPhen 2 Score 0.012 (Sensitivity: 0.96; Specificity: 0.78)
SMART Domains Protein: ENSMUSP00000103943
Gene: ENSMUSG00000040720
AA Change: D1465V

DomainStartEndE-ValueType
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
Meta Mutation Damage Score 0.2161 question?
Coding Region Coverage
  • 1x: 99.2%
  • 3x: 98.5%
  • 10x: 96.9%
  • 20x: 94.5%
Validation Efficiency 98% (61/62)
Allele List at MGI
Other mutations in this stock
Total: 54 list
GeneRefVarChr/LocMutationPredicted EffectZygosity
Ago4 T A 4: 126,390,557 (GRCm39) D821V possibly damaging Het
Ankdd1b C A 13: 96,557,281 (GRCm39) R384L probably damaging Het
Ces1e A G 8: 93,950,586 (GRCm39) F65S probably damaging Het
Cfap53 A C 18: 74,462,530 (GRCm39) S425R probably benign Het
Corin A G 5: 72,462,298 (GRCm39) V837A probably damaging Het
Cyp2d34 A T 15: 82,502,572 (GRCm39) V188E probably damaging Het
Defb26 A T 2: 152,349,878 (GRCm39) M134K unknown Het
Dnah10 A C 5: 124,862,220 (GRCm39) K2158N probably damaging Het
Dnah9 C T 11: 66,003,159 (GRCm39) V882M probably benign Het
Dpyd C A 3: 118,591,071 (GRCm39) Y186* probably null Het
Elovl1 G A 4: 118,288,124 (GRCm39) probably benign Het
Fars2 T A 13: 36,526,001 (GRCm39) I329N probably damaging Het
Gstm1 T A 3: 107,923,679 (GRCm39) M109L probably benign Het
Gtf2e1 T C 16: 37,356,293 (GRCm39) T80A probably damaging Het
Gtf2h2 A G 13: 100,618,356 (GRCm39) probably benign Het
Hrh4 G T 18: 13,148,870 (GRCm39) L77F probably damaging Het
Ifi47 A G 11: 48,986,559 (GRCm39) T109A probably benign Het
Igsf5 G T 16: 96,192,237 (GRCm39) E179* probably null Het
Ints8 A G 4: 11,211,916 (GRCm39) I885T probably damaging Het
Iqgap1 T G 7: 80,376,490 (GRCm39) I1341L probably benign Het
Kmt2b A G 7: 30,269,219 (GRCm39) L2567P probably damaging Het
Lilrb4a T C 10: 51,369,303 (GRCm39) probably null Het
Maip1 G A 1: 57,446,131 (GRCm39) R67H probably damaging Het
Muc6 T A 7: 141,237,375 (GRCm39) I254F possibly damaging Het
Nfkb1 A T 3: 135,318,173 (GRCm39) probably null Het
Nlrp4a T C 7: 26,159,236 (GRCm39) probably null Het
Nrap A T 19: 56,308,655 (GRCm39) I1477N possibly damaging Het
Pdgfa A G 5: 138,979,049 (GRCm39) S52P probably benign Het
Pou1f1 G T 16: 65,328,868 (GRCm39) E196* probably null Het
Ppp2r5e G A 12: 75,640,045 (GRCm39) R19W probably damaging Het
Ptn T A 6: 36,721,419 (GRCm39) Q7L probably benign Het
Rbp3 G T 14: 33,676,807 (GRCm39) A252S probably damaging Het
Rcor2 G T 19: 7,251,426 (GRCm39) V313L probably damaging Het
Rtp3 A T 9: 110,815,195 (GRCm39) probably benign Het
Ryr2 T C 13: 11,787,323 (GRCm39) T1017A probably damaging Het
Scgb2b11 T C 7: 31,908,776 (GRCm39) N108S probably benign Het
Sgo2b C A 8: 64,396,171 (GRCm39) L28F probably damaging Het
Shroom3 A G 5: 93,112,432 (GRCm39) E1850G probably damaging Het
Slc16a14 A G 1: 84,890,612 (GRCm39) L231P probably benign Het
Slfn5 A G 11: 82,847,496 (GRCm39) E127G possibly damaging Het
Snx16 C T 3: 10,502,892 (GRCm39) M118I probably damaging Het
Snx21 T C 2: 164,633,741 (GRCm39) F176L probably damaging Het
Tap2 A G 17: 34,432,990 (GRCm39) N424S probably benign Het
Tcf7l1 T C 6: 72,613,449 (GRCm39) probably benign Het
Trappc8 C T 18: 20,951,247 (GRCm39) V1400I probably benign Het
Trim58 T C 11: 58,542,494 (GRCm39) Y485H possibly damaging Het
U2af1l4 C T 7: 30,263,638 (GRCm39) T65I probably benign Het
Ufl1 G T 4: 25,251,294 (GRCm39) probably benign Het
Usp8 A G 2: 126,593,031 (GRCm39) N762S probably damaging Het
Vmn1r48 A T 6: 90,013,016 (GRCm39) S270T probably benign Het
Vrk2 T A 11: 26,541,697 (GRCm39) Y9F possibly damaging Het
Wwp1 A G 4: 19,631,057 (GRCm39) F659L probably damaging Het
Zbtb24 C T 10: 41,340,556 (GRCm39) Q529* probably null Het
Zranb1 CTGATGATGATG CTGATGATGATGATG 7: 132,584,556 (GRCm39) probably benign Het
Other mutations in Virma
AlleleSourceChrCoordTypePredicted EffectPPH 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
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'- GTCAGTTATCTGTTCTACCAATGC -3'
(R):5'- CACACTGAGAAGGAGCACTG -3'

Sequencing Primer
(F):5'- TGGAACTCACTCTGTAGACCAGG -3'
(R):5'- CTGAGAAGGAGCACTGATTTATTAC -3'
Posted On 2016-07-06