Incidental Mutation 'R5730:Virma'
ID 452707
Institutional Source Beutler Lab
Gene Symbol Virma
Ensembl Gene ENSMUSG00000040720
Gene Name vir like m6A methyltransferase associated
Synonyms 1110037F02Rik
MMRRC Submission 043191-MU
Accession Numbers
Essential gene? Essential (E-score: 1.000) question?
Stock # R5730 (G1)
Quality Score 225
Status Not validated
Chromosome 4
Chromosomal Location 11485958-11550684 bp(+) (GRCm39)
Type of Mutation missense
DNA Base Change (assembly) T to A at 11542154 bp (GRCm39)
Zygosity Heterozygous
Amino Acid Change Methionine to Lysine at position 1580 (M1580K)
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: M1530K

PolyPhen 2 Score 0.009 (Sensitivity: 0.96; Specificity: 0.77)
SMART Domains Protein: ENSMUSP00000058078
Gene: ENSMUSG00000040720
AA Change: M1530K

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: M1580K

PolyPhen 2 Score 0.441 (Sensitivity: 0.89; Specificity: 0.90)
SMART Domains Protein: ENSMUSP00000103943
Gene: ENSMUSG00000040720
AA Change: M1580K

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
Coding Region Coverage
  • 1x: 99.2%
  • 3x: 98.5%
  • 10x: 97.1%
  • 20x: 95.1%
Validation Efficiency
Allele List at MGI
Other mutations in this stock
Total: 42 list
GeneRefVarChr/LocMutationPredicted EffectZygosity
Ahnak T C 19: 8,987,617 (GRCm39) V2967A possibly damaging Het
Apaf1 A T 10: 90,856,633 (GRCm39) I858K possibly damaging Het
Baiap3 T C 17: 25,466,498 (GRCm39) T466A probably benign Het
Brca2 T A 5: 150,492,470 (GRCm39) S3162T possibly damaging Het
Brd1 T G 15: 88,601,248 (GRCm39) N462T probably benign Het
Carm1 G A 9: 21,491,636 (GRCm39) R235H probably benign Het
Cd80 T C 16: 38,303,097 (GRCm39) probably null Het
Clip4 A G 17: 72,117,954 (GRCm39) Y333C probably damaging Het
Col7a1 T C 9: 108,801,310 (GRCm39) probably null Het
Csmd1 G A 8: 16,235,206 (GRCm39) Q1206* probably null Het
Cyp17a1 A G 19: 46,661,095 (GRCm39) I63T possibly damaging Het
Diaph1 A G 18: 38,036,829 (GRCm39) Y119H unknown Het
Dst T G 1: 34,156,607 (GRCm39) probably null Het
Fgfr1 A G 8: 26,063,827 (GRCm39) T785A probably damaging Het
Gm1553 A G 10: 82,323,945 (GRCm39) F94S unknown Het
Gpbar1 A G 1: 74,318,195 (GRCm39) N146S probably damaging Het
Gpc5 A G 14: 116,025,726 (GRCm39) T588A possibly damaging Het
Gramd2a A G 9: 59,618,489 (GRCm39) H9R probably damaging Het
Klk1b11 G A 7: 43,424,199 (GRCm39) S6N probably benign Het
Lrp1 A G 10: 127,419,703 (GRCm39) S969P probably benign Het
Lyz2 G T 10: 117,114,587 (GRCm39) A114E probably damaging Het
Madd T C 2: 90,988,454 (GRCm39) D1193G probably damaging Het
Mrpl39 C T 16: 84,529,322 (GRCm39) G107R probably damaging Het
Mthfd2 C T 6: 83,294,441 (GRCm39) R24H probably benign Het
Or2q1 C T 6: 42,795,094 (GRCm39) R230* probably null Het
Or4a68 T C 2: 89,269,780 (GRCm39) N281S probably damaging Het
Ovch2 A G 7: 107,392,606 (GRCm39) C246R probably damaging Het
Phf14 A T 6: 11,953,319 (GRCm39) I353F possibly damaging Het
Ppp2r5a C T 1: 191,104,732 (GRCm39) V105I probably benign Het
Prr14l T C 5: 32,950,947 (GRCm39) T1949A probably damaging Het
Prss48 T G 3: 85,904,563 (GRCm39) M212L possibly damaging Het
Pstk A T 7: 130,975,503 (GRCm39) D152V probably damaging Het
Scn2a C A 2: 65,512,882 (GRCm39) S214* probably null Het
Scn3a T G 2: 65,325,604 (GRCm39) N971T probably benign Het
Syne3 T C 12: 104,927,713 (GRCm39) I250V probably benign Het
Synpo2 T C 3: 122,907,768 (GRCm39) D516G probably benign Het
Tcea3 T C 4: 135,992,204 (GRCm39) V209A probably benign Het
Tnr A G 1: 159,715,892 (GRCm39) S885G probably benign Het
Trak2 T C 1: 58,960,966 (GRCm39) D188G probably damaging Het
Tubb1 A G 2: 174,299,562 (GRCm39) I415V probably benign Het
Vmn1r120 A T 7: 20,786,934 (GRCm39) I259N possibly damaging Het
Vmn1r64 G A 7: 5,887,522 (GRCm39) T7I 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
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
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'- CACCGGGTTTGTTTTCTGAATC -3'
(R):5'- CAGAGAGAACATGAATTTGTCCTC -3'

Sequencing Primer
(F):5'- CTGATTGTTGAATAGCTTTTTGAACG -3'
(R):5'- TCCTCAAATGGACCTGAAGTG -3'
Posted On 2017-01-03