Incidental Mutation 'R4750:Prdm4'
ID 357510
Institutional Source Beutler Lab
Gene Symbol Prdm4
Ensembl Gene ENSMUSG00000035529
Gene Name PR domain containing 4
Synonyms SC-1, SC1, 1700031E19Rik, 2810470D21Rik
MMRRC Submission 042031-MU
Accession Numbers
Essential gene? Non essential (E-score: 0.000) question?
Stock # R4750 (G1)
Quality Score 225
Status Validated
Chromosome 10
Chromosomal Location 85727828-85752958 bp(-) (GRCm39)
Type of Mutation missense
DNA Base Change (assembly) A to G at 85735085 bp (GRCm39)
Zygosity Heterozygous
Amino Acid Change Phenylalanine to Leucine at position 679 (F679L)
Ref Sequence ENSEMBL: ENSMUSP00000041942 (fasta)
Gene Model predicted gene model for transcript(s): [ENSMUST00000037646] [ENSMUST00000219370] [ENSMUST00000220032]
AlphaFold Q80V63
Predicted Effect probably damaging
Transcript: ENSMUST00000037646
AA Change: F679L

PolyPhen 2 Score 1.000 (Sensitivity: 0.00; Specificity: 1.00)
SMART Domains Protein: ENSMUSP00000041942
Gene: ENSMUSG00000035529
AA Change: F679L

DomainStartEndE-ValueType
low complexity region 14 28 N/A INTRINSIC
low complexity region 33 44 N/A INTRINSIC
low complexity region 51 69 N/A INTRINSIC
low complexity region 339 353 N/A INTRINSIC
PDB:3DB5|B 386 543 2e-98 PDB
Blast:SET 408 538 5e-82 BLAST
ZnF_C2H2 548 569 7.77e1 SMART
low complexity region 575 588 N/A INTRINSIC
ZnF_C2H2 593 615 3.78e-1 SMART
ZnF_C2H2 621 643 2.27e-4 SMART
ZnF_C2H2 649 671 8.02e-5 SMART
ZnF_C2H2 677 699 3.63e-3 SMART
ZnF_C2H2 705 727 3.11e-2 SMART
ZnF_C2H2 733 753 1.81e1 SMART
low complexity region 759 780 N/A INTRINSIC
Predicted Effect noncoding transcript
Transcript: ENSMUST00000218743
Predicted Effect probably benign
Transcript: ENSMUST00000219370
Predicted Effect probably damaging
Transcript: ENSMUST00000220032
AA Change: F686L

PolyPhen 2 Score 0.999 (Sensitivity: 0.14; Specificity: 0.99)
Meta Mutation Damage Score 0.9069 question?
Coding Region Coverage
  • 1x: 99.2%
  • 3x: 98.6%
  • 10x: 97.2%
  • 20x: 94.9%
Validation Efficiency 97% (89/92)
MGI Phenotype FUNCTION: This gene encodes a member of the PR/SET family of zinc finger proteins. This protein has been shown to bind DNA in a sequence-specific manner and has been implicated in neural stem cell proliferation and differentiation. Pseudogenes have been identified on chromosomes 14 and X. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Nov 2014]
PHENOTYPE: Mice homozygous for alleles lacking the zinc finger domain or PR/SET domain exhibit no abnormal phenotype. [provided by MGI curators]
Allele List at MGI
Other mutations in this stock
Total: 83 list
GeneRefVarChr/LocMutationPredicted EffectZygosity
2510039O18Rik T A 4: 148,025,945 (GRCm39) L155Q probably damaging Het
Aadac T C 3: 59,943,238 (GRCm39) F48L probably benign Het
Aadat T A 8: 60,979,634 (GRCm39) N165K probably benign Het
Acan C A 7: 78,742,466 (GRCm39) D557E probably damaging Het
Adamts4 T A 1: 171,078,635 (GRCm39) V85D probably benign Het
Agt A G 8: 125,283,676 (GRCm39) V481A probably benign Het
Angpt1 T C 15: 42,539,797 (GRCm39) N21D probably benign Het
Ankrd52 A C 10: 128,213,958 (GRCm39) D38A probably damaging Het
Ap1g2 G T 14: 55,341,822 (GRCm39) Q247K probably damaging Het
Apaf1 T C 10: 90,896,050 (GRCm39) R341G probably damaging Het
Arf2 T C 11: 103,870,585 (GRCm39) probably null Het
Arhgef1 A G 7: 24,618,001 (GRCm39) probably benign Het
Bbln C T 2: 32,269,425 (GRCm39) probably null Het
Bbox1 T A 2: 110,095,866 (GRCm39) Y366F possibly damaging Het
Bmp3 A G 5: 99,020,417 (GRCm39) E280G possibly damaging Het
Cd109 CATTTATTTATTTATTTATTTATTTATTTATTTAT CATTTATTTATTTATTTATTTATTTATTTATTTATTTAT 9: 78,619,782 (GRCm39) probably benign Het
Cdh12 T A 15: 21,583,894 (GRCm39) V578D possibly damaging Het
Cdk19 T C 10: 40,352,195 (GRCm39) S282P probably damaging Het
Cfap46 A G 7: 139,259,239 (GRCm39) probably null Het
Cfhr3 T A 1: 139,512,566 (GRCm39) noncoding transcript Het
Ctrc T A 4: 141,568,834 (GRCm39) Y123F probably benign Het
Dync2i2 T C 2: 29,923,932 (GRCm39) T198A probably benign Het
Enpp4 A G 17: 44,413,246 (GRCm39) M96T probably damaging Het
Exosc10 T A 4: 148,646,851 (GRCm39) S154T possibly damaging Het
Fbxo21 G A 5: 118,138,533 (GRCm39) R486H probably benign Het
Foxj3 C A 4: 119,473,787 (GRCm39) A204E probably damaging Het
Gas6 T G 8: 13,526,227 (GRCm39) D237A probably benign Het
Gimap8 A G 6: 48,627,361 (GRCm39) S112G probably benign Het
Gm4787 T C 12: 81,425,141 (GRCm39) N339S possibly damaging Het
Gm6185 T C 1: 161,009,933 (GRCm39) noncoding transcript Het
Gramd2b A G 18: 56,565,372 (GRCm39) E9G probably benign Het
Hmgxb3 A T 18: 61,300,568 (GRCm39) D169E probably benign Het
Isl2 T A 9: 55,451,596 (GRCm39) V162D probably benign Het
Kcns3 T A 12: 11,141,655 (GRCm39) D348V probably damaging Het
Kcp G A 6: 29,484,625 (GRCm39) P1318S probably benign Het
Kif12 T A 4: 63,086,020 (GRCm39) Q415L probably damaging Het
Lama3 T A 18: 12,637,416 (GRCm39) H45Q probably benign Het
Lonp2 A T 8: 87,358,130 (GRCm39) K117M probably benign Het
Loxl4 T A 19: 42,593,443 (GRCm39) N243Y probably damaging Het
Lrif1 C A 3: 106,642,880 (GRCm39) Q662K probably benign Het
Lrrc37a T A 11: 103,346,306 (GRCm39) I3187L probably benign Het
Lsg1 A G 16: 30,384,267 (GRCm39) I521T probably damaging Het
Mecom T G 3: 30,011,679 (GRCm39) K865Q probably damaging Het
Myh10 T C 11: 68,676,140 (GRCm39) I790T probably damaging Het
Nek7 C T 1: 138,426,411 (GRCm39) S234N probably damaging Het
Nepro T C 16: 44,550,545 (GRCm39) L179P probably damaging Het
Nexn A G 3: 151,943,359 (GRCm39) C649R probably damaging Het
Nsmf T C 2: 24,945,038 (GRCm39) S34P probably damaging Het
Or10x1 A G 1: 174,196,488 (GRCm39) I2V probably benign Het
Or13n4 A G 7: 106,423,514 (GRCm39) F73S probably damaging Het
Or13p5 T A 4: 118,591,930 (GRCm39) V68D possibly damaging Het
Or1n2 T A 2: 36,797,728 (GRCm39) S257T probably benign Het
Or1p1c T A 11: 74,160,246 (GRCm39) F10L probably benign Het
Or2w2 A G 13: 21,757,913 (GRCm39) S238P possibly damaging Het
Or52l1 A T 7: 104,830,133 (GRCm39) I144N probably damaging Het
Or5bw2 A G 7: 6,573,850 (GRCm39) I287V probably benign Het
Or5w16 C T 2: 87,576,852 (GRCm39) T104I probably benign Het
P2rx5 G T 11: 73,055,703 (GRCm39) K53N probably damaging Het
Pcdhb20 C A 18: 37,639,184 (GRCm39) A570E possibly damaging Het
Pip4k2c T C 10: 127,047,286 (GRCm39) H32R unknown Het
Pkhd1 T A 1: 20,594,336 (GRCm39) D1259V possibly damaging Het
Plekha7 A T 7: 115,736,546 (GRCm39) V889E probably damaging Het
Polr2b A C 5: 77,479,886 (GRCm39) E546D possibly damaging Het
Ppm1l A G 3: 69,456,661 (GRCm39) T193A probably damaging Het
Ppp1r37 G T 7: 19,265,445 (GRCm39) D710E probably benign Het
Prkcd A G 14: 30,332,258 (GRCm39) M1T probably null Het
Prss59 A G 6: 40,897,955 (GRCm39) W243R probably damaging Het
Rcor3 A G 1: 191,814,749 (GRCm39) Y77H unknown Het
Rdh5 T C 10: 128,754,235 (GRCm39) E66G possibly damaging Het
Slc12a5 A G 2: 164,824,851 (GRCm39) M396V probably benign Het
Slco5a1 T G 1: 12,949,504 (GRCm39) T629P probably damaging Het
Smarca5 A C 8: 81,460,336 (GRCm39) N133K probably benign Het
Spag5 T C 11: 78,210,878 (GRCm39) M927T probably benign Het
Spint4 A T 2: 164,542,066 (GRCm39) D39V probably damaging Het
Syt6 T A 3: 103,538,233 (GRCm39) *512R probably null Het
Tmem247 T C 17: 87,229,770 (GRCm39) C204R probably damaging Het
Tmem72 A G 6: 116,672,395 (GRCm39) Y149H probably damaging Het
Trpm6 T C 19: 18,853,428 (GRCm39) V1816A probably damaging Het
Usp35 A G 7: 96,959,546 (GRCm39) V1008A possibly damaging Het
Washc4 T C 10: 83,426,916 (GRCm39) S1075P probably damaging Het
Xylb G T 9: 119,188,379 (GRCm39) G62* probably null Het
Zfp142 T C 1: 74,611,617 (GRCm39) E623G probably damaging Het
Zfp239 A G 6: 117,848,700 (GRCm39) Y146C probably damaging Het
Other mutations in Prdm4
AlleleSourceChrCoordTypePredicted EffectPPH Score
IGL01864:Prdm4 APN 10 85,729,100 (GRCm39) missense probably benign 0.08
IGL02514:Prdm4 APN 10 85,743,781 (GRCm39) missense probably damaging 0.99
IGL02576:Prdm4 APN 10 85,736,801 (GRCm39) missense possibly damaging 0.86
IGL02674:Prdm4 APN 10 85,729,263 (GRCm39) missense probably damaging 0.99
IGL03002:Prdm4 APN 10 85,729,016 (GRCm39) missense probably benign 0.08
IGL03153:Prdm4 APN 10 85,743,860 (GRCm39) missense probably benign
IGL03278:Prdm4 APN 10 85,743,622 (GRCm39) missense probably damaging 0.99
IGL03338:Prdm4 APN 10 85,743,685 (GRCm39) missense possibly damaging 0.90
R0020:Prdm4 UTSW 10 85,743,487 (GRCm39) missense probably benign
R0133:Prdm4 UTSW 10 85,746,085 (GRCm39) critical splice donor site probably null
R0366:Prdm4 UTSW 10 85,743,868 (GRCm39) missense probably damaging 1.00
R0633:Prdm4 UTSW 10 85,743,767 (GRCm39) missense probably damaging 1.00
R1132:Prdm4 UTSW 10 85,735,145 (GRCm39) missense probably damaging 1.00
R1460:Prdm4 UTSW 10 85,743,686 (GRCm39) missense probably benign 0.28
R1477:Prdm4 UTSW 10 85,740,129 (GRCm39) missense probably benign 0.00
R1680:Prdm4 UTSW 10 85,735,087 (GRCm39) missense possibly damaging 0.96
R1772:Prdm4 UTSW 10 85,729,256 (GRCm39) missense probably damaging 0.99
R1983:Prdm4 UTSW 10 85,743,817 (GRCm39) missense probably damaging 1.00
R2136:Prdm4 UTSW 10 85,729,215 (GRCm39) nonsense probably null
R3426:Prdm4 UTSW 10 85,746,153 (GRCm39) missense probably damaging 1.00
R3723:Prdm4 UTSW 10 85,735,145 (GRCm39) missense probably damaging 1.00
R4490:Prdm4 UTSW 10 85,736,763 (GRCm39) missense probably damaging 1.00
R5561:Prdm4 UTSW 10 85,728,987 (GRCm39) makesense probably null
R5601:Prdm4 UTSW 10 85,728,987 (GRCm39) makesense probably null
R5602:Prdm4 UTSW 10 85,728,987 (GRCm39) makesense probably null
R5604:Prdm4 UTSW 10 85,728,987 (GRCm39) makesense probably null
R5972:Prdm4 UTSW 10 85,743,365 (GRCm39) missense probably damaging 1.00
R6272:Prdm4 UTSW 10 85,743,694 (GRCm39) missense possibly damaging 0.82
R6300:Prdm4 UTSW 10 85,746,085 (GRCm39) critical splice donor site probably null
R6457:Prdm4 UTSW 10 85,743,896 (GRCm39) missense probably damaging 1.00
R6605:Prdm4 UTSW 10 85,740,002 (GRCm39) missense probably benign 0.00
R6642:Prdm4 UTSW 10 85,743,682 (GRCm39) missense probably benign 0.00
R7663:Prdm4 UTSW 10 85,735,145 (GRCm39) missense probably damaging 1.00
R9064:Prdm4 UTSW 10 85,737,678 (GRCm39) missense probably damaging 0.98
R9071:Prdm4 UTSW 10 85,729,076 (GRCm39) missense probably benign
Predicted Primers PCR Primer
(F):5'- ACTGCTTGGTTTCTCTGGAC -3'
(R):5'- TACCAGGCCTGAGTCAGTTCTG -3'

Sequencing Primer
(F):5'- TCTGGACCCTGGCCTGTAAG -3'
(R):5'- ACCTGCCTGTCAGAGAATCTGTAG -3'
Posted On 2015-11-11