Incidental Mutation 'R1940:Prg4'
ID 213877
Institutional Source Beutler Lab
Gene Symbol Prg4
Ensembl Gene ENSMUSG00000006014
Gene Name proteoglycan 4 (megakaryocyte stimulating factor, articular superficial zone protein)
Synonyms MSF, SZP, lubricin, DOL54
MMRRC Submission 039958-MU
Accession Numbers
Essential gene? Probably non essential (E-score: 0.140) question?
Stock # R1940 (G1)
Quality Score 225
Status Validated
Chromosome 1
Chromosomal Location 150325163-150341916 bp(-) (GRCm39)
Type of Mutation missense
DNA Base Change (assembly) T to C at 150331774 bp (GRCm39)
Zygosity Heterozygous
Amino Acid Change Threonine to Alanine at position 300 (T300A)
Ref Sequence ENSEMBL: ENSMUSP00000128943 (fasta)
Gene Model predicted gene model for transcript(s): [ENSMUST00000006171] [ENSMUST00000111901] [ENSMUST00000111902] [ENSMUST00000159035] [ENSMUST00000161320] [ENSMUST00000161611] [ENSMUST00000162367] [ENSMUST00000164600]
AlphaFold no structure available at present
Predicted Effect probably benign
Transcript: ENSMUST00000006171
SMART Domains Protein: ENSMUSP00000006171
Gene: ENSMUSG00000006014

DomainStartEndE-ValueType
signal peptide 1 24 N/A INTRINSIC
SO 26 68 9.21e-18 SMART
SO 69 108 4.21e-12 SMART
low complexity region 110 124 N/A INTRINSIC
HX 169 211 1.67e-7 SMART
HX 213 256 3.76e-10 SMART
Blast:HX 369 422 2e-27 BLAST
Predicted Effect probably benign
Transcript: ENSMUST00000111901
AA Change: T212A

PolyPhen 2 Score 0.015 (Sensitivity: 0.96; Specificity: 0.79)
SMART Domains Protein: ENSMUSP00000107532
Gene: ENSMUSG00000006014
AA Change: T212A

DomainStartEndE-ValueType
signal peptide 1 24 N/A INTRINSIC
SO 26 68 9.21e-18 SMART
SO 69 108 4.21e-12 SMART
low complexity region 110 124 N/A INTRINSIC
low complexity region 141 151 N/A INTRINSIC
low complexity region 189 221 N/A INTRINSIC
low complexity region 241 535 N/A INTRINSIC
low complexity region 570 623 N/A INTRINSIC
HX 711 753 1.67e-7 SMART
HX 755 798 3.76e-10 SMART
Blast:HX 911 964 5e-27 BLAST
Predicted Effect possibly damaging
Transcript: ENSMUST00000111902
AA Change: T259A

PolyPhen 2 Score 0.528 (Sensitivity: 0.88; Specificity: 0.90)
SMART Domains Protein: ENSMUSP00000107533
Gene: ENSMUSG00000006014
AA Change: T259A

DomainStartEndE-ValueType
signal peptide 1 24 N/A INTRINSIC
SO 25 67 2.71e-15 SMART
low complexity region 69 81 N/A INTRINSIC
low complexity region 86 143 N/A INTRINSIC
low complexity region 150 171 N/A INTRINSIC
low complexity region 188 198 N/A INTRINSIC
low complexity region 236 268 N/A INTRINSIC
low complexity region 288 582 N/A INTRINSIC
internal_repeat_1 588 614 2.72e-5 PROSPERO
low complexity region 617 670 N/A INTRINSIC
internal_repeat_1 680 706 2.72e-5 PROSPERO
HX 758 800 1.67e-7 SMART
HX 802 845 3.76e-10 SMART
Blast:HX 958 1011 4e-27 BLAST
Predicted Effect probably benign
Transcript: ENSMUST00000159035
SMART Domains Protein: ENSMUSP00000124410
Gene: ENSMUSG00000006014

DomainStartEndE-ValueType
signal peptide 1 24 N/A INTRINSIC
SO 25 67 2.71e-15 SMART
low complexity region 69 81 N/A INTRINSIC
low complexity region 88 99 N/A INTRINSIC
Predicted Effect unknown
Transcript: ENSMUST00000161320
AA Change: T171A
SMART Domains Protein: ENSMUSP00000124801
Gene: ENSMUSG00000006014
AA Change: T171A

DomainStartEndE-ValueType
signal peptide 1 24 N/A INTRINSIC
SO 25 67 3.83e-15 SMART
low complexity region 69 83 N/A INTRINSIC
low complexity region 100 110 N/A INTRINSIC
low complexity region 148 179 N/A INTRINSIC
Predicted Effect possibly damaging
Transcript: ENSMUST00000161611
AA Change: T300A

PolyPhen 2 Score 0.528 (Sensitivity: 0.88; Specificity: 0.90)
SMART Domains Protein: ENSMUSP00000125677
Gene: ENSMUSG00000006014
AA Change: T300A

DomainStartEndE-ValueType
signal peptide 1 24 N/A INTRINSIC
SO 26 68 9.21e-18 SMART
SO 69 108 2.77e-12 SMART
low complexity region 110 122 N/A INTRINSIC
low complexity region 127 184 N/A INTRINSIC
low complexity region 191 212 N/A INTRINSIC
low complexity region 229 239 N/A INTRINSIC
internal_repeat_3 244 271 7.42e-5 PROSPERO
low complexity region 277 309 N/A INTRINSIC
Pfam:Cornifin 578 691 2.2e-9 PFAM
internal_repeat_3 796 825 7.42e-5 PROSPERO
internal_repeat_2 797 823 1.24e-5 PROSPERO
low complexity region 826 879 N/A INTRINSIC
internal_repeat_2 889 915 1.24e-5 PROSPERO
HX 967 1009 1.67e-7 SMART
HX 1011 1054 3.76e-10 SMART
Blast:HX 1167 1220 6e-27 BLAST
Predicted Effect probably benign
Transcript: ENSMUST00000162367
SMART Domains Protein: ENSMUSP00000125551
Gene: ENSMUSG00000006014

DomainStartEndE-ValueType
signal peptide 1 24 N/A INTRINSIC
SO 26 68 9.21e-18 SMART
SO 69 108 4.21e-12 SMART
low complexity region 110 124 N/A INTRINSIC
HX 169 211 1.67e-7 SMART
HX 213 256 3.76e-10 SMART
Blast:HX 369 422 2e-27 BLAST
Predicted Effect possibly damaging
Transcript: ENSMUST00000164600
AA Change: T300A

PolyPhen 2 Score 0.528 (Sensitivity: 0.88; Specificity: 0.90)
SMART Domains Protein: ENSMUSP00000128943
Gene: ENSMUSG00000006014
AA Change: T300A

DomainStartEndE-ValueType
signal peptide 1 24 N/A INTRINSIC
SO 26 68 9.21e-18 SMART
SO 69 108 2.77e-12 SMART
low complexity region 110 122 N/A INTRINSIC
low complexity region 127 184 N/A INTRINSIC
low complexity region 191 212 N/A INTRINSIC
low complexity region 229 239 N/A INTRINSIC
internal_repeat_3 244 271 7.42e-5 PROSPERO
low complexity region 277 309 N/A INTRINSIC
Pfam:Cornifin 404 497 2.4e-14 PFAM
Pfam:Cornifin 468 584 3.2e-15 PFAM
Pfam:Cornifin 550 648 3.3e-16 PFAM
Pfam:Cornifin 625 722 2.1e-15 PFAM
Pfam:Cornifin 647 743 7.8e-16 PFAM
Pfam:Cornifin 706 822 1.4e-12 PFAM
low complexity region 826 879 N/A INTRINSIC
internal_repeat_2 889 915 1.24e-5 PROSPERO
HX 967 1009 1.67e-7 SMART
HX 1011 1054 3.76e-10 SMART
Blast:HX 1167 1220 6e-27 BLAST
Meta Mutation Damage Score 0.1795 question?
Coding Region Coverage
  • 1x: 97.5%
  • 3x: 97.0%
  • 10x: 95.8%
  • 20x: 93.7%
Validation Efficiency 98% (108/110)
MGI Phenotype PHENOTYPE: Aging homozygous null mice develop a hopping gait, irregular endochondral growth plates, altered cartilage surface, camptodactyly, progressive synovial hyperplasia and, ultimately, joint failure. [provided by MGI curators]
Allele List at MGI
Other mutations in this stock
Total: 107 list
GeneRefVarChr/LocMutationPredicted EffectZygosity
Abca16 T C 7: 120,032,832 (GRCm39) probably benign Het
Ace2 A T X: 162,939,524 (GRCm39) M123L possibly damaging Het
Acvr1c A T 2: 58,173,517 (GRCm39) N248K probably damaging Het
Adam24 A T 8: 41,134,400 (GRCm39) R623* probably null Het
Agbl2 T A 2: 90,641,626 (GRCm39) L752Q probably damaging Het
Ankrd26 A T 6: 118,488,654 (GRCm39) F1335Y probably damaging Het
Ankrd34a A G 3: 96,505,992 (GRCm39) S399G probably benign Het
Aoc1l3 A T 6: 48,967,007 (GRCm39) K652* probably null Het
Ap3d1 G A 10: 80,545,607 (GRCm39) P1041S probably benign Het
Arid3b A T 9: 57,703,431 (GRCm39) M466K possibly damaging Het
Arsj T C 3: 126,231,995 (GRCm39) I247T probably damaging Het
AU016765 G A 17: 64,826,873 (GRCm39) noncoding transcript Het
Azin2 C T 4: 128,844,577 (GRCm39) probably null Het
Bcat2 T C 7: 45,237,792 (GRCm39) Y313H possibly damaging Het
Cables2 A G 2: 179,901,873 (GRCm39) V465A probably damaging Het
Ccdc60 G A 5: 116,264,224 (GRCm39) H517Y probably damaging Het
Cd55b A T 1: 130,345,843 (GRCm39) probably null Het
Cdc40 G A 10: 40,759,067 (GRCm39) probably benign Het
Cdh20 G A 1: 109,976,754 (GRCm39) V140I probably benign Het
Cdhr18 A T 14: 13,828,582 (GRCm38) M726K probably null Het
Cfi T C 3: 129,652,477 (GRCm39) probably benign Het
Chit1 G A 1: 134,073,156 (GRCm39) probably null Het
Chn1 A G 2: 73,455,245 (GRCm39) C39R probably damaging Het
Ciao1 A G 2: 127,088,380 (GRCm39) S148P possibly damaging Het
Clmn G A 12: 104,756,361 (GRCm39) T163I probably damaging Het
Cngb1 C A 8: 96,026,320 (GRCm39) G154W probably damaging Het
Col19a1 A T 1: 24,303,831 (GRCm39) C1117* probably null Het
Cplane1 T A 15: 8,263,336 (GRCm39) S2496R probably damaging Het
Cyp2d10 T A 15: 82,289,495 (GRCm39) I206F probably benign Het
Ddrgk1 G T 2: 130,505,480 (GRCm39) probably benign Het
Ddx18 A T 1: 121,482,953 (GRCm39) V611D probably damaging Het
Dnah8 A T 17: 30,950,181 (GRCm39) H2000L probably damaging Het
Duox1 T C 2: 122,156,465 (GRCm39) V464A probably benign Het
Dync2h1 A G 9: 7,139,159 (GRCm39) probably null Het
Eif4enif1 A G 11: 3,193,279 (GRCm39) H857R probably damaging Het
Elmo2 A G 2: 165,133,970 (GRCm39) probably benign Het
Fam171b CCAGCAGCAGCAGCAGCAGCAGC CCAGCAGCAGCAGCAGCAGC 2: 83,643,218 (GRCm39) probably benign Het
Glrx A G 13: 75,988,256 (GRCm39) I57V probably benign Het
Golm1 A T 13: 59,790,051 (GRCm39) probably benign Het
Grm3 G A 5: 9,561,682 (GRCm39) R723W probably damaging Het
Gsta3 G A 1: 21,327,601 (GRCm39) R45Q probably benign Het
Gtf3c3 A C 1: 54,468,117 (GRCm39) probably benign Het
Hk3 C T 13: 55,159,204 (GRCm39) V451I probably damaging Het
Hoxa10 C A 6: 52,211,350 (GRCm39) G189C possibly damaging Het
Hs3st3b1 T C 11: 63,780,569 (GRCm39) D186G probably benign Het
Hscb G T 5: 110,983,926 (GRCm39) H63N probably benign Het
Itpr3 A G 17: 27,330,191 (GRCm39) E1603G probably damaging Het
Ivl T A 3: 92,480,056 (GRCm39) H3L probably benign Het
Klhl26 C A 8: 70,904,911 (GRCm39) R252L probably damaging Het
Krt31 T A 11: 99,939,069 (GRCm39) T251S probably benign Het
Lama5 T C 2: 179,832,714 (GRCm39) N1646S probably benign Het
Lhx3 T C 2: 26,093,974 (GRCm39) D83G probably benign Het
Lss C A 10: 76,381,296 (GRCm39) N427K possibly damaging Het
Mettl24 G A 10: 40,613,722 (GRCm39) A154T probably benign Het
Mgat4a A T 1: 37,575,118 (GRCm39) probably null Het
Moxd2 C T 6: 40,860,466 (GRCm39) R326Q probably damaging Het
Mpdz G A 4: 81,279,680 (GRCm39) A669V probably benign Het
Msra G A 14: 64,522,505 (GRCm39) probably benign Het
Muc13 A T 16: 33,628,281 (GRCm39) T344S probably benign Het
Myo3b T C 2: 70,088,419 (GRCm39) I866T probably benign Het
Nbea T C 3: 55,860,521 (GRCm39) S1852G possibly damaging Het
Ncf2 A G 1: 152,709,815 (GRCm39) probably benign Het
Nfyc C A 4: 120,630,861 (GRCm39) probably benign Het
Nop2 T C 6: 125,111,597 (GRCm39) V110A probably benign Het
Nrg2 C A 18: 36,329,897 (GRCm39) probably benign Het
Nrl A G 14: 55,759,892 (GRCm39) Y12H probably damaging Het
Nrxn3 T C 12: 89,227,151 (GRCm39) V635A probably damaging Het
Or4d11 A C 19: 12,013,275 (GRCm39) V277G probably benign Het
Or6b2b T A 1: 92,419,457 (GRCm39) T7S probably benign Het
Or8k41 T A 2: 86,313,703 (GRCm39) K128* probably null Het
Or9g8 T A 2: 85,607,515 (GRCm39) S196T probably benign Het
Papolg A T 11: 23,817,279 (GRCm39) N639K probably benign Het
Paqr4 T C 17: 23,956,638 (GRCm39) I242V probably damaging Het
Pramel6 A T 2: 87,339,076 (GRCm39) K92M probably damaging Het
Ptprb A T 10: 116,155,515 (GRCm39) probably benign Het
Rab28 A T 5: 41,783,133 (GRCm39) S216T probably benign Het
Rrp1b A T 17: 32,275,819 (GRCm39) R455S possibly damaging Het
Sash1 A T 10: 8,605,696 (GRCm39) M898K probably benign Het
Scn8a C T 15: 100,868,085 (GRCm39) T310I probably benign Het
Secisbp2l C A 2: 125,582,259 (GRCm39) D1066Y probably damaging Het
Sipa1l2 A G 8: 126,206,887 (GRCm39) probably benign Het
Slc12a1 A G 2: 125,036,113 (GRCm39) T662A probably benign Het
Slc12a4 T C 8: 106,672,669 (GRCm39) I749V probably benign Het
Slc22a27 A G 19: 7,887,092 (GRCm39) S266P probably damaging Het
Slc25a14 G A X: 47,740,840 (GRCm39) V210I probably benign Het
Slit1 T A 19: 41,619,215 (GRCm39) N762I probably damaging Het
Spata31d1b C A 13: 59,865,835 (GRCm39) D994E possibly damaging Het
Sphk1 A G 11: 116,426,676 (GRCm39) I204V probably benign Het
Srsf6 C T 2: 162,776,403 (GRCm39) probably benign Het
Tet2 T C 3: 133,194,399 (GRCm39) T12A possibly damaging Het
Tgfbi A T 13: 56,762,127 (GRCm39) Q70L possibly damaging Het
Tlr9 T C 9: 106,101,846 (GRCm39) L379P probably damaging Het
Tnrc6c A G 11: 117,646,849 (GRCm39) D1450G possibly damaging Het
Tra2b A G 16: 22,073,795 (GRCm39) probably benign Het
Trit1 T C 4: 122,948,033 (GRCm39) I451T probably benign Het
Trnau1ap A G 4: 132,049,114 (GRCm39) Y30H probably damaging Het
Ttc34 G A 4: 154,950,139 (GRCm39) A1031T possibly damaging Het
Ubiad1 A G 4: 148,528,468 (GRCm39) L147P probably damaging Het
Ush2a A G 1: 188,683,758 (GRCm39) D4979G probably null Het
Usp50 C T 2: 126,619,943 (GRCm39) R123Q probably benign Het
Vmn2r117 A T 17: 23,696,454 (GRCm39) Y318N probably damaging Het
Whamm C T 7: 81,228,047 (GRCm39) T304I probably null Het
Wipf2 C T 11: 98,783,236 (GRCm39) R221* probably null Het
Ythdf3 A G 3: 16,259,256 (GRCm39) N468D possibly damaging Het
Zbtb17 T C 4: 141,192,859 (GRCm39) I486T possibly damaging Het
Zfp3 T C 11: 70,662,202 (GRCm39) S54P probably benign Het
Zscan10 A T 17: 23,828,826 (GRCm39) H379L probably damaging Het
Other mutations in Prg4
AlleleSourceChrCoordTypePredicted EffectPPH Score
IGL00493:Prg4 APN 1 150,327,671 (GRCm39) missense probably damaging 0.99
IGL02033:Prg4 APN 1 150,331,619 (GRCm39) intron probably benign
IGL02154:Prg4 APN 1 150,330,613 (GRCm39) intron probably benign
IGL03111:Prg4 APN 1 150,327,653 (GRCm39) missense probably benign 0.06
IGL03177:Prg4 APN 1 150,331,354 (GRCm39) intron probably benign
IGL03260:Prg4 APN 1 150,331,378 (GRCm39) intron probably benign
IGL03281:Prg4 APN 1 150,325,839 (GRCm39) splice site probably benign
R0046:Prg4 UTSW 1 150,331,837 (GRCm39) missense possibly damaging 0.53
R0046:Prg4 UTSW 1 150,331,837 (GRCm39) missense possibly damaging 0.53
R0196:Prg4 UTSW 1 150,330,243 (GRCm39) intron probably benign
R0233:Prg4 UTSW 1 150,329,298 (GRCm39) splice site probably benign
R0255:Prg4 UTSW 1 150,331,558 (GRCm39) intron probably benign
R0616:Prg4 UTSW 1 150,336,462 (GRCm39) missense probably damaging 1.00
R1016:Prg4 UTSW 1 150,330,442 (GRCm39) intron probably benign
R1826:Prg4 UTSW 1 150,327,760 (GRCm39) missense probably benign 0.09
R1862:Prg4 UTSW 1 150,336,420 (GRCm39) missense probably damaging 0.99
R1863:Prg4 UTSW 1 150,336,420 (GRCm39) missense probably damaging 0.99
R1922:Prg4 UTSW 1 150,325,750 (GRCm39) nonsense probably null
R3765:Prg4 UTSW 1 150,327,122 (GRCm39) missense probably damaging 0.97
R3855:Prg4 UTSW 1 150,327,751 (GRCm39) missense probably damaging 1.00
R3894:Prg4 UTSW 1 150,330,510 (GRCm39) intron probably benign
R3895:Prg4 UTSW 1 150,330,510 (GRCm39) intron probably benign
R3912:Prg4 UTSW 1 150,327,619 (GRCm39) missense probably damaging 1.00
R3935:Prg4 UTSW 1 150,333,908 (GRCm39) missense possibly damaging 0.68
R4050:Prg4 UTSW 1 150,330,510 (GRCm39) intron probably benign
R4475:Prg4 UTSW 1 150,330,610 (GRCm39) intron probably benign
R4794:Prg4 UTSW 1 150,330,297 (GRCm39) intron probably benign
R4910:Prg4 UTSW 1 150,331,574 (GRCm39) intron probably benign
R4911:Prg4 UTSW 1 150,331,574 (GRCm39) intron probably benign
R4993:Prg4 UTSW 1 150,336,432 (GRCm39) missense probably damaging 1.00
R5378:Prg4 UTSW 1 150,330,977 (GRCm39) intron probably benign
R5381:Prg4 UTSW 1 150,330,204 (GRCm39) intron probably benign
R5452:Prg4 UTSW 1 150,331,519 (GRCm39) intron probably benign
R5870:Prg4 UTSW 1 150,331,300 (GRCm39) nonsense probably null
R5888:Prg4 UTSW 1 150,328,101 (GRCm39) missense probably damaging 1.00
R5929:Prg4 UTSW 1 150,329,880 (GRCm39) missense probably benign 0.01
R6058:Prg4 UTSW 1 150,327,197 (GRCm39) missense probably damaging 0.99
R6059:Prg4 UTSW 1 150,325,748 (GRCm39) missense possibly damaging 0.67
R6232:Prg4 UTSW 1 150,331,567 (GRCm39) intron probably benign
R6272:Prg4 UTSW 1 150,330,517 (GRCm39) intron probably benign
R6459:Prg4 UTSW 1 150,330,052 (GRCm39) intron probably benign
R6659:Prg4 UTSW 1 150,336,432 (GRCm39) missense probably damaging 1.00
R6663:Prg4 UTSW 1 150,330,852 (GRCm39) intron probably benign
R6882:Prg4 UTSW 1 150,329,246 (GRCm39) missense probably damaging 1.00
R6970:Prg4 UTSW 1 150,331,657 (GRCm39) intron probably benign
R7078:Prg4 UTSW 1 150,334,014 (GRCm39) missense possibly damaging 0.91
R7102:Prg4 UTSW 1 150,328,005 (GRCm39) missense probably damaging 1.00
R7264:Prg4 UTSW 1 150,329,818 (GRCm39) missense not run
R7487:Prg4 UTSW 1 150,331,656 (GRCm39) missense unknown
R7531:Prg4 UTSW 1 150,330,786 (GRCm39) missense unknown
R7651:Prg4 UTSW 1 150,330,696 (GRCm39) missense unknown
R7701:Prg4 UTSW 1 150,333,293 (GRCm39) missense possibly damaging 0.53
R8072:Prg4 UTSW 1 150,331,774 (GRCm39) missense possibly damaging 0.53
R8168:Prg4 UTSW 1 150,331,601 (GRCm39) missense unknown
R8248:Prg4 UTSW 1 150,330,877 (GRCm39) missense unknown
R8436:Prg4 UTSW 1 150,331,318 (GRCm39) missense unknown
R8460:Prg4 UTSW 1 150,331,692 (GRCm39) missense possibly damaging 0.83
R8514:Prg4 UTSW 1 150,330,396 (GRCm39) missense unknown
R8904:Prg4 UTSW 1 150,331,810 (GRCm39) missense possibly damaging 0.83
R9072:Prg4 UTSW 1 150,331,288 (GRCm39) missense unknown
R9073:Prg4 UTSW 1 150,331,288 (GRCm39) missense unknown
R9274:Prg4 UTSW 1 150,331,924 (GRCm39) missense possibly damaging 0.53
R9337:Prg4 UTSW 1 150,327,116 (GRCm39) missense probably damaging 1.00
R9488:Prg4 UTSW 1 150,327,024 (GRCm39) missense probably benign
R9613:Prg4 UTSW 1 150,331,660 (GRCm39) missense unknown
R9670:Prg4 UTSW 1 150,326,618 (GRCm39) missense probably benign 0.01
X0024:Prg4 UTSW 1 150,330,243 (GRCm39) intron probably benign
Predicted Primers PCR Primer
(F):5'- GAGTTGTGGGTTCAGGCTCC -3'
(R):5'- TGAGTTCAAGCTCACCCCAC -3'

Sequencing Primer
(F):5'- CAGGCTCCTTGGGGGTG -3'
(R):5'- TGACCCTCCTACTACTCCACACAG -3'
Posted On 2014-07-14