Incidental Mutation 'R5992:Cep290'
ID 480899
Institutional Source Beutler Lab
Gene Symbol Cep290
Ensembl Gene ENSMUSG00000019971
Gene Name centrosomal protein 290
Synonyms b2b1454Clo, Nphp6, b2b1752Clo
Accession Numbers
Essential gene? Probably essential (E-score: 0.949) question?
Stock # R5992 (G1)
Quality Score 225.009
Status Not validated
Chromosome 10
Chromosomal Location 100487558-100574840 bp(+) (GRCm38)
Type of Mutation missense
DNA Base Change (assembly) C to T at 100543321 bp (GRCm38)
Zygosity Heterozygous
Amino Acid Change Alanine to Valine at position 55 (A55V)
Ref Sequence ENSEMBL: ENSMUSP00000151414 (fasta)
Gene Model predicted gene model for transcript(s): [ENSMUST00000164751] [ENSMUST00000219408] [ENSMUST00000219765] [ENSMUST00000220346]
AlphaFold Q6A078
Predicted Effect probably benign
Transcript: ENSMUST00000164751
AA Change: A1632V

PolyPhen 2 Score 0.096 (Sensitivity: 0.93; Specificity: 0.85)
SMART Domains Protein: ENSMUSP00000130899
Gene: ENSMUSG00000019971
AA Change: A1632V

DomainStartEndE-ValueType
coiled coil region 59 298 N/A INTRINSIC
coiled coil region 319 566 N/A INTRINSIC
coiled coil region 598 662 N/A INTRINSIC
coiled coil region 697 754 N/A INTRINSIC
coiled coil region 780 875 N/A INTRINSIC
internal_repeat_2 884 894 1.1e-5 PROSPERO
coiled coil region 986 1028 N/A INTRINSIC
internal_repeat_2 1057 1067 1.1e-5 PROSPERO
coiled coil region 1071 1109 N/A INTRINSIC
low complexity region 1140 1156 N/A INTRINSIC
internal_repeat_1 1176 1206 8.72e-8 PROSPERO
coiled coil region 1221 1250 N/A INTRINSIC
Pfam:CEP209_CC5 1290 1417 3.8e-55 PFAM
low complexity region 1476 1493 N/A INTRINSIC
internal_repeat_1 1498 1525 8.72e-8 PROSPERO
coiled coil region 1535 1595 N/A INTRINSIC
coiled coil region 1624 1716 N/A INTRINSIC
coiled coil region 1776 2328 N/A INTRINSIC
low complexity region 2333 2347 N/A INTRINSIC
coiled coil region 2377 2453 N/A INTRINSIC
Predicted Effect noncoding transcript
Transcript: ENSMUST00000218703
Predicted Effect possibly damaging
Transcript: ENSMUST00000219408
AA Change: A55V

PolyPhen 2 Score 0.729 (Sensitivity: 0.86; Specificity: 0.92)
Predicted Effect noncoding transcript
Transcript: ENSMUST00000219643
Predicted Effect probably benign
Transcript: ENSMUST00000219765
AA Change: A1625V

PolyPhen 2 Score 0.068 (Sensitivity: 0.94; Specificity: 0.84)
Predicted Effect probably benign
Transcript: ENSMUST00000220346
AA Change: A1632V

PolyPhen 2 Score 0.096 (Sensitivity: 0.93; Specificity: 0.85)
Coding Region Coverage
  • 1x: 99.9%
  • 3x: 99.5%
  • 10x: 97.4%
  • 20x: 91.9%
Validation Efficiency
MGI Phenotype FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] This gene encodes a protein with 13 putative coiled-coil domains, a region with homology to SMC chromosome segregation ATPases, six KID motifs, three tropomyosin homology domains and an ATP/GTP binding site motif A. The protein is localized to the centrosome and cilia and has sites for N-glycosylation, tyrosine sulfation, phosphorylation, N-myristoylation, and amidation. Mutations in this gene have been associated with Joubert syndrome and nephronophthisis and the presence of antibodies against this protein is associated with several forms of cancer. [provided by RefSeq, Jul 2008]
PHENOTYPE: Mutant mice display mislocalization of ciliary and phototransduction proteins resulting in early-onset retinal degeneration. Heterotaxy with transposition of the great arteries (TGA), atrioventricular septal defect (AVSD), left bronchial isomerism, and hypoplastic spleen is also seen. [provided by MGI curators]
Allele List at MGI
Other mutations in this stock
Total: 73 list
GeneRefVarChr/LocMutationPredicted EffectZygosity
Aars2 T A 17: 45,508,623 (GRCm38) L188* probably null Het
Acod1 C T 14: 103,055,035 (GRCm38) R332C probably damaging Het
Adamts3 T A 5: 89,691,335 (GRCm38) K852M probably damaging Het
Adm A T 7: 110,627,696 (GRCm38) probably benign Het
Aff4 A G 11: 53,373,010 (GRCm38) S286G probably damaging Het
Ank2 A G 3: 126,959,651 (GRCm38) probably null Het
Aqr A T 2: 114,143,049 (GRCm38) Y427* probably null Het
Arid1b C A 17: 4,994,956 (GRCm38) probably benign Het
Arpp21 T A 9: 112,143,485 (GRCm38) R259* probably null Het
Chsy3 GT G 18: 59,176,166 (GRCm38) 163 probably null Het
Clcn2 T C 16: 20,713,654 (GRCm38) E68G possibly damaging Het
Corin T A 5: 72,316,389 (GRCm38) H699L probably benign Het
Cyld T C 8: 88,733,053 (GRCm38) Y446H probably damaging Het
Dcst1 T A 3: 89,352,576 (GRCm38) E613V probably damaging Het
Dlk1 T C 12: 109,455,581 (GRCm38) C74R probably damaging Het
Dnah12 A C 14: 26,697,341 (GRCm38) K128T probably benign Het
Dspp T A 5: 104,178,451 (GRCm38) S893R unknown Het
Dtl A T 1: 191,568,572 (GRCm38) probably null Het
F2rl1 T A 13: 95,514,270 (GRCm38) S35C probably benign Het
Fcgbp A T 7: 28,120,534 (GRCm38) Y2562F probably benign Het
Fgf10 A T 13: 118,715,508 (GRCm38) D42V probably benign Het
Gm10271 A T 10: 116,972,592 (GRCm38) F6L probably damaging Het
Gm21190 T A 5: 15,524,851 (GRCm38) E256D probably damaging Het
Gm5157 A G 7: 21,185,421 (GRCm38) S66P probably damaging Het
Gm884 A T 11: 103,613,792 (GRCm38) M2450K possibly damaging Het
Hal T G 10: 93,490,916 (GRCm38) L138R probably damaging Het
Hsd17b3 T C 13: 64,059,470 (GRCm38) probably null Het
Lrsam1 T C 2: 32,955,222 (GRCm38) T94A probably benign Het
Macc1 T C 12: 119,447,585 (GRCm38) V696A probably damaging Het
Magi2 G A 5: 19,227,291 (GRCm38) M1I probably null Het
March7 C A 2: 60,245,220 (GRCm38) N674K probably benign Het
Mfap1b A G 2: 121,470,295 (GRCm38) V34A probably benign Het
Mob3b G A 4: 35,084,069 (GRCm38) S40L probably benign Het
Ndufs2 A T 1: 171,236,418 (GRCm38) V386E probably damaging Het
Nfic C T 10: 81,420,747 (GRCm38) A19T probably damaging Het
Nfs1 G A 2: 156,134,453 (GRCm38) R174W probably damaging Het
Nin G T 12: 70,045,524 (GRCm38) S670R possibly damaging Het
Nrxn1 T C 17: 90,623,507 (GRCm38) I754V probably benign Het
Nwd1 T C 8: 72,653,573 (GRCm38) probably null Het
Olfr1231 T A 2: 89,303,359 (GRCm38) T78S possibly damaging Het
Olfr1238 T A 2: 89,406,879 (GRCm38) M67L probably benign Het
Olfr575 G T 7: 102,955,009 (GRCm38) N197K probably benign Het
Pcdhgb8 A G 18: 37,763,449 (GRCm38) E524G probably damaging Het
Phlpp1 A T 1: 106,318,993 (GRCm38) R638* probably null Het
Pkmyt1 G C 17: 23,735,326 (GRCm38) W360S probably benign Het
Plxnd1 C A 6: 115,967,787 (GRCm38) probably null Het
Poldip3 A T 15: 83,129,229 (GRCm38) N322K probably damaging Het
Prmt3 A T 7: 49,828,947 (GRCm38) I419L probably benign Het
Prss36 A T 7: 127,944,830 (GRCm38) V123E probably damaging Het
Prss58 A G 6: 40,897,769 (GRCm38) I46T probably damaging Het
Rac1 T C 5: 143,506,998 (GRCm38) probably benign Het
Rb1cc1 A G 1: 6,233,996 (GRCm38) Y36C probably damaging Het
Rif1 C G 2: 52,095,844 (GRCm38) L614V probably damaging Het
Rnd2 C T 11: 101,468,999 (GRCm38) L57F probably damaging Het
Rp1 A T 1: 4,148,703 (GRCm38) F951L unknown Het
Rps6ka5 G T 12: 100,575,250 (GRCm38) P417T possibly damaging Het
Ryr1 A G 7: 29,067,637 (GRCm38) W2967R probably damaging Het
Sacs T A 14: 61,205,543 (GRCm38) S1679R probably damaging Het
Scn1a A C 2: 66,335,456 (GRCm38) W153G probably damaging Het
Serpinb7 A G 1: 107,445,996 (GRCm38) Y114C probably damaging Het
Son T C 16: 91,658,904 (GRCm38) M1513T probably benign Het
Spag8 C T 4: 43,651,534 (GRCm38) V447M probably benign Het
St3gal2 T A 8: 110,969,553 (GRCm38) Y257N probably damaging Het
Tars A T 15: 11,397,196 (GRCm38) D40E probably damaging Het
Tlr3 T C 8: 45,397,814 (GRCm38) H158R probably benign Het
Tppp2 G T 14: 51,918,935 (GRCm38) V50L probably benign Het
Trrap T C 5: 144,810,184 (GRCm38) S1503P probably benign Het
Ttll4 T G 1: 74,685,391 (GRCm38) S573R probably damaging Het
Vmn2r104 A T 17: 20,029,485 (GRCm38) N841K probably damaging Het
Vmn2r3 A T 3: 64,259,647 (GRCm38) C688S probably damaging Het
Vps16 T C 2: 130,424,449 (GRCm38) probably null Het
Zfp608 G A 18: 54,899,248 (GRCm38) T540I probably benign Het
Zfp775 G A 6: 48,619,816 (GRCm38) R208Q probably damaging Het
Other mutations in Cep290
AlleleSourceChrCoordTypePredicted EffectPPH Score
IGL00430:Cep290 APN 10 100,508,724 (GRCm38) missense probably benign 0.00
IGL00499:Cep290 APN 10 100,543,327 (GRCm38) missense probably damaging 1.00
IGL00547:Cep290 APN 10 100,510,708 (GRCm38) missense probably damaging 0.99
IGL00573:Cep290 APN 10 100,540,361 (GRCm38) missense probably damaging 1.00
IGL00646:Cep290 APN 10 100,501,154 (GRCm38) missense probably benign 0.15
IGL00755:Cep290 APN 10 100,531,104 (GRCm38) missense probably damaging 1.00
IGL00835:Cep290 APN 10 100,563,380 (GRCm38) nonsense probably null
IGL00846:Cep290 APN 10 100,540,333 (GRCm38) splice site probably benign
IGL00985:Cep290 APN 10 100,567,161 (GRCm38) splice site probably benign
IGL01687:Cep290 APN 10 100,500,205 (GRCm38) missense probably damaging 1.00
IGL01782:Cep290 APN 10 100,545,125 (GRCm38) nonsense probably null
IGL02010:Cep290 APN 10 100,561,345 (GRCm38) missense probably benign 0.00
IGL02010:Cep290 APN 10 100,508,707 (GRCm38) missense probably benign 0.39
IGL02036:Cep290 APN 10 100,558,100 (GRCm38) nonsense probably null
IGL02039:Cep290 APN 10 100,514,602 (GRCm38) critical splice donor site probably null
IGL02532:Cep290 APN 10 100,545,065 (GRCm38) missense probably benign 0.04
IGL02950:Cep290 APN 10 100,540,329 (GRCm38) splice site probably benign
IGL03105:Cep290 APN 10 100,551,824 (GRCm38) missense possibly damaging 0.66
IGL03179:Cep290 APN 10 100,568,088 (GRCm38) missense possibly damaging 0.60
IGL03271:Cep290 APN 10 100,537,801 (GRCm38) missense probably benign 0.09
IGL03401:Cep290 APN 10 100,500,265 (GRCm38) missense probably benign 0.27
PIT4687001:Cep290 UTSW 10 100,537,591 (GRCm38) missense probably benign 0.28
R0025:Cep290 UTSW 10 100,537,831 (GRCm38) missense probably damaging 1.00
R0127:Cep290 UTSW 10 100,536,925 (GRCm38) splice site probably benign
R0254:Cep290 UTSW 10 100,514,574 (GRCm38) missense probably benign 0.31
R0295:Cep290 UTSW 10 100,537,821 (GRCm38) missense probably damaging 0.99
R0371:Cep290 UTSW 10 100,518,564 (GRCm38) splice site probably benign
R0390:Cep290 UTSW 10 100,508,758 (GRCm38) missense probably benign 0.09
R0399:Cep290 UTSW 10 100,554,400 (GRCm38) splice site probably benign
R0413:Cep290 UTSW 10 100,523,314 (GRCm38) nonsense probably null
R0427:Cep290 UTSW 10 100,516,179 (GRCm38) missense probably benign 0.01
R0472:Cep290 UTSW 10 100,551,455 (GRCm38) missense probably benign 0.19
R0485:Cep290 UTSW 10 100,549,344 (GRCm38) missense possibly damaging 0.94
R0635:Cep290 UTSW 10 100,492,676 (GRCm38) missense probably damaging 1.00
R0675:Cep290 UTSW 10 100,568,813 (GRCm38) critical splice acceptor site probably null
R0972:Cep290 UTSW 10 100,518,762 (GRCm38) missense probably benign 0.08
R1238:Cep290 UTSW 10 100,517,863 (GRCm38) missense probably damaging 1.00
R1297:Cep290 UTSW 10 100,539,100 (GRCm38) splice site probably benign
R1368:Cep290 UTSW 10 100,494,966 (GRCm38) splice site probably benign
R1394:Cep290 UTSW 10 100,537,529 (GRCm38) missense possibly damaging 0.66
R1437:Cep290 UTSW 10 100,572,101 (GRCm38) missense probably benign 0.00
R1493:Cep290 UTSW 10 100,562,181 (GRCm38) missense probably benign 0.21
R1496:Cep290 UTSW 10 100,538,966 (GRCm38) missense probably damaging 1.00
R1539:Cep290 UTSW 10 100,496,828 (GRCm38) missense probably benign 0.06
R1598:Cep290 UTSW 10 100,549,329 (GRCm38) missense probably damaging 1.00
R1616:Cep290 UTSW 10 100,568,836 (GRCm38) missense probably benign
R1712:Cep290 UTSW 10 100,554,499 (GRCm38) missense probably benign 0.02
R1753:Cep290 UTSW 10 100,513,981 (GRCm38) missense probably benign
R1773:Cep290 UTSW 10 100,510,573 (GRCm38) missense probably benign
R1775:Cep290 UTSW 10 100,496,810 (GRCm38) missense probably damaging 0.98
R1799:Cep290 UTSW 10 100,516,196 (GRCm38) missense probably benign 0.00
R1937:Cep290 UTSW 10 100,497,953 (GRCm38) missense possibly damaging 0.71
R1991:Cep290 UTSW 10 100,531,184 (GRCm38) missense possibly damaging 0.80
R2031:Cep290 UTSW 10 100,512,400 (GRCm38) critical splice donor site probably null
R2164:Cep290 UTSW 10 100,518,795 (GRCm38) missense probably damaging 0.96
R2393:Cep290 UTSW 10 100,561,238 (GRCm38) critical splice acceptor site probably null
R2403:Cep290 UTSW 10 100,537,437 (GRCm38) missense probably benign 0.19
R3612:Cep290 UTSW 10 100,541,581 (GRCm38) nonsense probably null
R3800:Cep290 UTSW 10 100,572,941 (GRCm38) missense probably damaging 0.97
R4005:Cep290 UTSW 10 100,539,008 (GRCm38) missense probably damaging 1.00
R4039:Cep290 UTSW 10 100,512,401 (GRCm38) critical splice donor site probably null
R4259:Cep290 UTSW 10 100,514,492 (GRCm38) missense probably damaging 1.00
R4260:Cep290 UTSW 10 100,514,492 (GRCm38) missense probably damaging 1.00
R4319:Cep290 UTSW 10 100,539,047 (GRCm38) missense probably benign 0.09
R4329:Cep290 UTSW 10 100,537,668 (GRCm38) missense probably damaging 0.98
R4573:Cep290 UTSW 10 100,518,850 (GRCm38) missense probably benign
R4614:Cep290 UTSW 10 100,559,687 (GRCm38) missense possibly damaging 0.93
R4614:Cep290 UTSW 10 100,508,740 (GRCm38) missense probably benign
R4708:Cep290 UTSW 10 100,523,264 (GRCm38) missense probably benign 0.02
R4727:Cep290 UTSW 10 100,563,270 (GRCm38) missense probably benign 0.05
R4825:Cep290 UTSW 10 100,488,348 (GRCm38) missense probably damaging 0.96
R4839:Cep290 UTSW 10 100,508,786 (GRCm38) missense probably damaging 0.99
R4858:Cep290 UTSW 10 100,494,911 (GRCm38) missense probably benign 0.31
R4871:Cep290 UTSW 10 100,548,914 (GRCm38) missense probably benign 0.22
R5094:Cep290 UTSW 10 100,567,030 (GRCm38) missense probably damaging 0.97
R5103:Cep290 UTSW 10 100,539,020 (GRCm38) missense probably damaging 1.00
R5499:Cep290 UTSW 10 100,537,653 (GRCm38) missense probably damaging 0.99
R5505:Cep290 UTSW 10 100,499,186 (GRCm38) critical splice donor site probably null
R5615:Cep290 UTSW 10 100,531,150 (GRCm38) missense probably damaging 1.00
R5815:Cep290 UTSW 10 100,558,108 (GRCm38) missense possibly damaging 0.80
R5883:Cep290 UTSW 10 100,523,399 (GRCm38) missense probably benign 0.44
R5889:Cep290 UTSW 10 100,499,074 (GRCm38) missense possibly damaging 0.95
R5928:Cep290 UTSW 10 100,551,830 (GRCm38) missense probably damaging 0.99
R6000:Cep290 UTSW 10 100,541,787 (GRCm38) missense probably damaging 1.00
R6213:Cep290 UTSW 10 100,523,360 (GRCm38) missense probably benign 0.06
R6274:Cep290 UTSW 10 100,530,207 (GRCm38) missense probably damaging 1.00
R6285:Cep290 UTSW 10 100,523,329 (GRCm38) missense probably benign 0.17
R6306:Cep290 UTSW 10 100,531,166 (GRCm38) missense possibly damaging 0.89
R6593:Cep290 UTSW 10 100,508,776 (GRCm38) missense probably benign 0.01
R6649:Cep290 UTSW 10 100,518,531 (GRCm38) missense probably benign 0.28
R6692:Cep290 UTSW 10 100,569,144 (GRCm38) splice site probably null
R6788:Cep290 UTSW 10 100,488,628 (GRCm38) missense probably damaging 1.00
R6847:Cep290 UTSW 10 100,563,419 (GRCm38) missense probably damaging 1.00
R6947:Cep290 UTSW 10 100,530,056 (GRCm38) missense probably damaging 1.00
R7035:Cep290 UTSW 10 100,499,071 (GRCm38) missense probably benign 0.07
R7073:Cep290 UTSW 10 100,539,003 (GRCm38) missense possibly damaging 0.90
R7114:Cep290 UTSW 10 100,543,358 (GRCm38) missense probably damaging 0.98
R7256:Cep290 UTSW 10 100,546,498 (GRCm38) missense probably damaging 1.00
R7258:Cep290 UTSW 10 100,499,108 (GRCm38) missense probably benign 0.01
R7311:Cep290 UTSW 10 100,537,718 (GRCm38) missense probably damaging 0.98
R7505:Cep290 UTSW 10 100,516,265 (GRCm38) missense probably benign 0.01
R7615:Cep290 UTSW 10 100,492,681 (GRCm38) missense probably benign 0.03
R7643:Cep290 UTSW 10 100,537,553 (GRCm38) missense probably benign
R7662:Cep290 UTSW 10 100,537,803 (GRCm38) missense probably benign 0.21
R7663:Cep290 UTSW 10 100,554,536 (GRCm38) critical splice donor site probably null
R7685:Cep290 UTSW 10 100,540,057 (GRCm38) missense probably benign 0.19
R7699:Cep290 UTSW 10 100,540,369 (GRCm38) missense probably benign 0.33
R7717:Cep290 UTSW 10 100,492,681 (GRCm38) missense probably benign 0.03
R7747:Cep290 UTSW 10 100,558,176 (GRCm38) nonsense probably null
R7757:Cep290 UTSW 10 100,563,434 (GRCm38) missense probably benign
R7843:Cep290 UTSW 10 100,516,188 (GRCm38) missense possibly damaging 0.49
R7905:Cep290 UTSW 10 100,554,490 (GRCm38) missense probably benign
R8078:Cep290 UTSW 10 100,572,887 (GRCm38) missense probably benign 0.04
R8081:Cep290 UTSW 10 100,558,176 (GRCm38) nonsense probably null
R8094:Cep290 UTSW 10 100,544,931 (GRCm38) missense possibly damaging 0.95
R8266:Cep290 UTSW 10 100,559,671 (GRCm38) missense probably benign 0.08
R8305:Cep290 UTSW 10 100,544,934 (GRCm38) missense probably benign 0.09
R8325:Cep290 UTSW 10 100,517,808 (GRCm38) missense probably benign 0.03
R8372:Cep290 UTSW 10 100,549,341 (GRCm38) missense probably benign 0.00
R8443:Cep290 UTSW 10 100,495,844 (GRCm38) missense possibly damaging 0.80
R8497:Cep290 UTSW 10 100,551,458 (GRCm38) missense probably damaging 1.00
R8778:Cep290 UTSW 10 100,514,512 (GRCm38) nonsense probably null
R8975:Cep290 UTSW 10 100,513,920 (GRCm38) missense possibly damaging 0.54
R9146:Cep290 UTSW 10 100,541,803 (GRCm38) missense probably benign 0.44
R9264:Cep290 UTSW 10 100,498,016 (GRCm38) missense possibly damaging 0.86
R9374:Cep290 UTSW 10 100,536,867 (GRCm38) missense probably damaging 0.98
R9448:Cep290 UTSW 10 100,559,684 (GRCm38) missense probably benign 0.32
R9499:Cep290 UTSW 10 100,536,867 (GRCm38) missense probably damaging 0.98
R9507:Cep290 UTSW 10 100,494,923 (GRCm38) missense possibly damaging 0.81
R9539:Cep290 UTSW 10 100,568,851 (GRCm38) missense probably damaging 1.00
R9547:Cep290 UTSW 10 100,544,979 (GRCm38) missense probably benign 0.00
R9551:Cep290 UTSW 10 100,536,867 (GRCm38) missense probably damaging 0.98
R9657:Cep290 UTSW 10 100,515,141 (GRCm38) missense possibly damaging 0.93
R9731:Cep290 UTSW 10 100,510,542 (GRCm38) missense probably damaging 0.98
R9756:Cep290 UTSW 10 100,516,172 (GRCm38) missense probably damaging 0.97
R9777:Cep290 UTSW 10 100,518,667 (GRCm38) missense probably benign 0.01
Z1176:Cep290 UTSW 10 100,549,374 (GRCm38) critical splice donor site probably benign
Z1177:Cep290 UTSW 10 100,538,997 (GRCm38) missense possibly damaging 0.89
Z1177:Cep290 UTSW 10 100,497,944 (GRCm38) missense probably benign
Predicted Primers PCR Primer
(F):5'- TGCTCATAACCGTGCATTGC -3'
(R):5'- CAGCAGGTACAAGCTTTATCATAGC -3'

Sequencing Primer
(F):5'- TGCATTGCACTTAGACACTGAC -3'
(R):5'- ACAAGCTTTATCATAGCATAACTTCC -3'
Posted On 2017-06-26