Incidental Mutation 'R1951:Virma'
ID 217277
Institutional Source Beutler Lab
Gene Symbol Virma
Ensembl Gene ENSMUSG00000040720
Gene Name vir like m6A methyltransferase associated
Synonyms 1110037F02Rik
MMRRC Submission 039965-MU
Accession Numbers
Essential gene? Essential (E-score: 1.000) question?
Stock # R1951 (G1)
Quality Score 225
Status Validated
Chromosome 4
Chromosomal Location 11485958-11550684 bp(+) (GRCm39)
Type of Mutation missense
DNA Base Change (assembly) A to G at 11513907 bp (GRCm39)
Zygosity Heterozygous
Amino Acid Change Aspartic acid to Glycine at position 587 (D587G)
Ref Sequence ENSEMBL: ENSMUSP00000103943 (fasta)
Gene Model predicted gene model for transcript(s): [ENSMUST00000055372] [ENSMUST00000059914] [ENSMUST00000108307]
AlphaFold A2AIV2
Predicted Effect probably benign
Transcript: ENSMUST00000055372
AA Change: D587G

PolyPhen 2 Score 0.000 (Sensitivity: 1.00; Specificity: 0.00)
SMART Domains Protein: ENSMUSP00000063188
Gene: ENSMUSG00000040720
AA Change: D587G

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
Predicted Effect probably benign
Transcript: ENSMUST00000059914
AA Change: D587G

PolyPhen 2 Score 0.000 (Sensitivity: 1.00; Specificity: 0.00)
SMART Domains Protein: ENSMUSP00000058078
Gene: ENSMUSG00000040720
AA Change: D587G

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: D587G

PolyPhen 2 Score 0.001 (Sensitivity: 0.99; Specificity: 0.15)
SMART Domains Protein: ENSMUSP00000103943
Gene: ENSMUSG00000040720
AA Change: D587G

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 0.0588 question?
Coding Region Coverage
  • 1x: 99.2%
  • 3x: 98.5%
  • 10x: 96.8%
  • 20x: 94.2%
Validation Efficiency 98% (84/86)
Allele List at MGI
Other mutations in this stock
Total: 82 list
GeneRefVarChr/LocMutationPredicted EffectZygosity
Abca15 C T 7: 119,960,655 (GRCm39) R706C probably damaging Het
Adcy3 T C 12: 4,258,624 (GRCm39) F847S probably benign Het
Alyref C G 11: 120,486,758 (GRCm39) V168L probably damaging Het
Arhgap28 G A 17: 68,208,336 (GRCm39) A44V probably benign Het
Asap3 C T 4: 135,954,767 (GRCm39) R60* probably null Het
Baz1b T A 5: 135,245,593 (GRCm39) N347K probably benign Het
Best2 T A 8: 85,737,858 (GRCm39) N179I possibly damaging Het
Bfar C T 16: 13,519,970 (GRCm39) S276L probably damaging Het
Bloc1s3 A G 7: 19,241,483 (GRCm39) V15A possibly damaging Het
Borcs5 A G 6: 134,687,230 (GRCm39) H196R unknown Het
Calhm3 A G 19: 47,140,256 (GRCm39) L279P probably benign Het
Cand1 A T 10: 119,043,925 (GRCm39) probably benign Het
Car15 T C 16: 17,655,269 (GRCm39) D57G possibly damaging Het
Casp12 G A 9: 5,348,959 (GRCm39) probably null Het
Cd93 T C 2: 148,283,778 (GRCm39) T523A probably benign Het
Ces4a G A 8: 105,864,729 (GRCm39) G69S probably damaging Het
Ckap5 A G 2: 91,386,837 (GRCm39) probably benign Het
Col6a5 G A 9: 105,814,156 (GRCm39) R619W unknown Het
Colec12 G A 18: 9,859,975 (GRCm39) probably null Het
Crmp1 G A 5: 37,430,699 (GRCm39) V222I possibly damaging Het
Crnkl1 G A 2: 145,770,120 (GRCm39) A241V probably damaging Het
Ctbp2 A G 7: 132,616,756 (GRCm39) S60P probably benign Het
Cyp2c68 T C 19: 39,700,972 (GRCm39) Y282C probably benign Het
Dhx36 T C 3: 62,391,694 (GRCm39) I551V probably damaging Het
Dlg5 T A 14: 24,206,537 (GRCm39) probably benign Het
Dlgap1 A T 17: 71,068,306 (GRCm39) I300F probably damaging Het
Dmd T A X: 82,874,123 (GRCm39) I1342N probably damaging Het
Dnah6 T A 6: 73,061,704 (GRCm39) R2794* probably null Het
Fcgr1 G A 3: 96,194,386 (GRCm39) T167I probably damaging Het
Fgl1 G T 8: 41,650,387 (GRCm39) F187L probably benign Het
Fras1 T A 5: 96,860,242 (GRCm39) V2096E probably benign Het
Gm10647 A G 9: 66,705,762 (GRCm39) probably benign Het
Gm14226 G A 2: 154,866,255 (GRCm39) D71N possibly damaging Het
Grip2 A T 6: 91,760,829 (GRCm39) I284N probably damaging Het
Hirip3 A G 7: 126,462,038 (GRCm39) R19G probably damaging Het
Ift70b A G 2: 75,767,586 (GRCm39) L389P probably damaging Het
Irx5 A G 8: 93,086,438 (GRCm39) N174D probably damaging Het
Itgal A G 7: 126,929,317 (GRCm39) D1078G probably damaging Het
Khdc3 T C 9: 73,010,519 (GRCm39) V123A possibly damaging Het
Klhl13 A G X: 23,127,820 (GRCm39) probably benign Het
Klhl42 T C 6: 146,993,321 (GRCm39) S98P probably damaging Het
Lrp5 T C 19: 3,670,298 (GRCm39) N602S possibly damaging Het
Lrrd1 A T 5: 3,901,488 (GRCm39) I598F probably damaging Het
Ltbp1 A G 17: 75,458,372 (GRCm39) T318A probably benign Het
Mfsd6 A G 1: 52,748,517 (GRCm39) F116S probably damaging Het
Ncam1 T C 9: 49,456,492 (GRCm39) I486V probably benign Het
Nptx1 A G 11: 119,434,006 (GRCm39) probably null Het
Nrg1 T C 8: 32,408,221 (GRCm39) Y4C probably damaging Het
Nsf G A 11: 103,773,702 (GRCm39) R271* probably null Het
Or5d39 A G 2: 87,979,641 (GRCm39) S241P possibly damaging Het
Or8g24 T A 9: 38,989,580 (GRCm39) I154F probably benign Het
Or8k18 G C 2: 86,085,440 (GRCm39) T199S probably benign Het
Or8k21 T A 2: 86,145,504 (GRCm39) N42I probably damaging Het
Or8k24 A T 2: 86,215,855 (GRCm39) H302Q probably benign Het
Pax2 A G 19: 44,777,271 (GRCm39) T155A probably benign Het
Pdia4 A G 6: 47,780,813 (GRCm39) Y212H probably damaging Het
Pgr A G 9: 8,946,954 (GRCm39) probably benign Het
Pitpnm3 G T 11: 71,965,450 (GRCm39) H112N possibly damaging Het
Ppargc1b G T 18: 61,431,848 (GRCm39) T1000K possibly damaging Het
Psd3 C A 8: 68,416,139 (GRCm39) C586F probably benign Het
Ptprm A T 17: 67,247,575 (GRCm39) S587T probably benign Het
Rabep2 A T 7: 126,037,736 (GRCm39) R169S possibly damaging Het
Rad21l T C 2: 151,497,179 (GRCm39) R309G probably benign Het
Rbm12 T C 2: 155,939,133 (GRCm39) R380G probably damaging Het
Selp A G 1: 163,954,081 (GRCm39) N127S probably benign Het
Slc12a2 A G 18: 58,012,467 (GRCm39) T197A possibly damaging Het
Slc22a18 C T 7: 143,029,984 (GRCm39) T17I probably damaging Het
Sptbn4 T C 7: 27,065,868 (GRCm39) E2026G possibly damaging Het
Srf A T 17: 46,862,633 (GRCm39) M285K possibly damaging Het
Tanc1 T C 2: 59,622,156 (GRCm39) V425A possibly damaging Het
Tle4 A T 19: 14,493,721 (GRCm39) probably null Het
Tmem132e A G 11: 82,335,908 (GRCm39) R905G possibly damaging Het
Tmem200c A T 17: 69,147,983 (GRCm39) I189F probably damaging Het
Trappc13 T C 13: 104,311,150 (GRCm39) Q87R probably benign Het
Trpm7 A T 2: 126,673,219 (GRCm39) D511E probably damaging Het
Ttn A T 2: 76,632,634 (GRCm39) I14140N possibly damaging Het
Vmn1r72 A G 7: 11,403,731 (GRCm39) L239P probably damaging Het
Vmn2r68 A G 7: 84,883,102 (GRCm39) F217L probably damaging Het
Vps13c T C 9: 67,881,041 (GRCm39) probably null Het
Vrtn T C 12: 84,695,973 (GRCm39) V241A probably damaging Het
Xdh T C 17: 74,214,653 (GRCm39) E764G probably damaging Het
Zranb3 A T 1: 127,927,136 (GRCm39) V343D probably damaging 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
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'- CTTTGGACAGTGTCATTAGCATG -3'
(R):5'- TGAGGTGCAGTTTCCATGAC -3'

Sequencing Primer
(F):5'- TGAGAAAAGTGGCTATCAAAGACTTC -3'
(R):5'- GGTGCAGTTTCCATGACATGAAAAAC -3'
Posted On 2014-08-01