Incidental Mutation 'R5061:Virma'
ID 386602
Institutional Source Beutler Lab
Gene Symbol Virma
Ensembl Gene ENSMUSG00000040720
Gene Name vir like m6A methyltransferase associated
Synonyms 1110037F02Rik
MMRRC Submission 042651-MU
Accession Numbers
Essential gene? Essential (E-score: 1.000) question?
Stock # R5061 (G1)
Quality Score 225
Status Validated
Chromosome 4
Chromosomal Location 11485958-11550684 bp(+) (GRCm39)
Type of Mutation missense
DNA Base Change (assembly) T to C at 11494840 bp (GRCm39)
Zygosity Heterozygous
Amino Acid Change Valine to Alanine at position 47 (V47A)
Ref Sequence ENSEMBL: ENSMUSP00000058078 (fasta)
Gene Model predicted gene model for transcript(s): [ENSMUST00000055372] [ENSMUST00000059914] [ENSMUST00000108307]
AlphaFold A2AIV2
Predicted Effect possibly damaging
Transcript: ENSMUST00000055372
AA Change: V47A

PolyPhen 2 Score 0.955 (Sensitivity: 0.79; Specificity: 0.95)
SMART Domains Protein: ENSMUSP00000063188
Gene: ENSMUSG00000040720
AA Change: V47A

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 possibly damaging
Transcript: ENSMUST00000059914
AA Change: V47A

PolyPhen 2 Score 0.955 (Sensitivity: 0.79; Specificity: 0.95)
SMART Domains Protein: ENSMUSP00000058078
Gene: ENSMUSG00000040720
AA Change: V47A

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: V47A

PolyPhen 2 Score 0.001 (Sensitivity: 0.99; Specificity: 0.15)
SMART Domains Protein: ENSMUSP00000103943
Gene: ENSMUSG00000040720
AA Change: V47A

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 0.0938 question?
Coding Region Coverage
  • 1x: 99.2%
  • 3x: 98.5%
  • 10x: 96.8%
  • 20x: 93.7%
Validation Efficiency 100% (71/71)
Allele List at MGI
Other mutations in this stock
Total: 69 list
GeneRefVarChr/LocMutationPredicted EffectZygosity
1700009N14Rik A G 4: 39,450,953 (GRCm39) H53R probably benign Het
Abcg1 A G 17: 31,311,366 (GRCm39) K124E probably damaging Het
Acot4 G T 12: 84,085,475 (GRCm39) R64L probably benign Het
Adam22 G C 5: 8,230,238 (GRCm39) probably benign Het
Add2 G A 6: 86,064,029 (GRCm39) probably null Het
Adgrb3 G A 1: 25,107,209 (GRCm39) probably benign Het
Akap8l T G 17: 32,551,868 (GRCm39) K441T probably damaging Het
Aspn T A 13: 49,720,080 (GRCm39) S365R probably damaging Het
Atxn1 T G 13: 45,710,569 (GRCm39) K788Q probably damaging Het
Atxn2l G T 7: 126,099,375 (GRCm39) H135N probably damaging Het
Borcs8 T G 8: 70,593,008 (GRCm39) probably null Het
Col5a1 G A 2: 27,842,390 (GRCm39) D422N unknown Het
Cstad A T 2: 30,498,275 (GRCm39) T37S unknown Het
Dgkq A T 5: 108,801,989 (GRCm39) D455E probably benign Het
Dop1a T C 9: 86,385,161 (GRCm39) probably benign Het
Ebf3 T C 7: 136,915,288 (GRCm39) I84V possibly damaging Het
Ehmt2 C T 17: 35,118,067 (GRCm39) R40* probably null Het
Eif3e A T 15: 43,115,657 (GRCm39) W370R probably damaging Het
Eya3 T A 4: 132,431,689 (GRCm39) D323E probably damaging Het
F5 T C 1: 164,021,749 (GRCm39) L1408P probably benign Het
Fam110d T C 4: 133,979,041 (GRCm39) T146A probably benign Het
Gfod1 C T 13: 43,353,992 (GRCm39) G328S probably benign Het
Gja1 T A 10: 56,263,752 (GRCm39) L37Q probably damaging Het
Gm10650 T A 3: 127,833,666 (GRCm39) noncoding transcript Het
Gm14226 T A 2: 154,867,106 (GRCm39) H354Q probably benign Het
Gm15056 T C 8: 21,390,758 (GRCm39) T60A probably benign Het
Hsd11b1 A T 1: 192,924,553 (GRCm39) N6K probably benign Het
Ighv1-36 T C 12: 114,843,742 (GRCm39) I39M probably benign Het
Igkv4-80 A C 6: 68,993,649 (GRCm39) S81A probably benign Het
Kdm7a G A 6: 39,128,386 (GRCm39) P482S possibly damaging Het
Lama5 C A 2: 179,840,579 (GRCm39) E607* probably null Het
Lao1 T A 4: 118,824,673 (GRCm39) S252T probably benign Het
Lrp12 A G 15: 39,741,650 (GRCm39) F355S probably damaging Het
Mlycd T C 8: 120,137,043 (GRCm39) F421S probably damaging Het
Nectin3 T C 16: 46,268,812 (GRCm39) E530G probably benign Het
Nifk T C 1: 118,260,669 (GRCm39) *270R probably null Het
Ocln T C 13: 100,676,106 (GRCm39) Y129C probably damaging Het
Or10ag60 C T 2: 87,438,176 (GRCm39) T148I probably benign Het
Or4f54 T A 2: 111,122,832 (GRCm39) L73H probably damaging Het
Or52l1 T A 7: 104,829,864 (GRCm39) I219F possibly damaging Het
Or5b117 A T 19: 13,431,349 (GRCm39) C177* probably null Het
Otx1 C A 11: 21,947,037 (GRCm39) A91S probably damaging Het
Pcdhb22 G T 18: 37,652,179 (GRCm39) G216C probably damaging Het
Ppcs T C 4: 119,276,412 (GRCm39) K58E probably damaging Het
Prss38 T C 11: 59,265,196 (GRCm39) T123A probably damaging Het
Rap1gap T A 4: 137,447,744 (GRCm39) probably null Het
Rbm18 A G 2: 36,017,217 (GRCm39) F54L possibly damaging Het
Rwdd3 G A 3: 120,953,432 (GRCm39) probably benign Het
Ryr2 T C 13: 11,650,422 (GRCm39) K138E possibly damaging Het
Sec24a T C 11: 51,604,359 (GRCm39) probably null Het
Serpinb10 A G 1: 107,468,701 (GRCm39) T115A probably benign Het
Slco1a8 T A 6: 141,954,414 (GRCm39) M20L probably benign Het
Slx4ip T G 2: 136,885,930 (GRCm39) F83L probably damaging Het
St3gal1 A T 15: 66,980,078 (GRCm39) S274T probably benign Het
Stab1 A C 14: 30,885,056 (GRCm39) C121W probably damaging Het
Stab2 A G 10: 86,743,249 (GRCm39) L1149P probably damaging Het
Svil T G 18: 5,048,954 (GRCm39) I77R probably benign Het
Tbk1 T G 10: 121,412,241 (GRCm39) E47A possibly damaging Het
Tert C T 13: 73,782,397 (GRCm39) T557I probably damaging Het
Tfap2c A G 2: 172,393,947 (GRCm39) D252G probably damaging Het
Tll1 C A 8: 64,506,983 (GRCm39) C586F probably damaging Het
Tln2 T G 9: 67,261,750 (GRCm39) N663T probably benign Het
Tmem245 T A 4: 56,946,945 (GRCm39) Y156F possibly damaging Het
Uhrf1 G T 17: 56,627,542 (GRCm39) probably null Het
Unc79 T A 12: 103,134,700 (GRCm39) M2417K possibly damaging Het
Ush2a T C 1: 188,689,471 (GRCm39) V5011A probably benign Het
Vmn2r53 A C 7: 12,315,741 (GRCm39) S693A probably benign Het
Vps54 G A 11: 21,269,881 (GRCm39) probably benign Het
Znfx1 T C 2: 166,907,318 (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
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'- ATCCCTGGATTTTAAGATTGTTGGC -3'
(R):5'- GCAAAACCAGTGCCTATGATATAAGC -3'

Sequencing Primer
(F):5'- GTTGGCTTCATTTTAAGCTG -3'
(R):5'- CGGGGAGGAGCATATTTAA -3'
Posted On 2016-06-06