Incidental Mutation 'R0601:Ncapd3'
ID 55412
Institutional Source Beutler Lab
Gene Symbol Ncapd3
Ensembl Gene ENSMUSG00000035024
Gene Name non-SMC condensin II complex, subunit D3
Synonyms 4632407J06Rik, 2810487N22Rik, B130055D15Rik
MMRRC Submission 038790-MU
Accession Numbers
Essential gene? Probably essential (E-score: 0.963) question?
Stock # R0601 (G1)
Quality Score 225
Status Validated
Chromosome 9
Chromosomal Location 26941471-27006611 bp(+) (GRCm39)
Type of Mutation missense
DNA Base Change (assembly) T to A at 26952803 bp (GRCm39)
Zygosity Heterozygous
Amino Acid Change Tyrosine to Asparagine at position 111 (Y111N)
Ref Sequence ENSEMBL: ENSMUSP00000150938 (fasta)
Gene Model predicted gene model for transcript(s): [ENSMUST00000073127] [ENSMUST00000086198] [ENSMUST00000216677]
AlphaFold no structure available at present
Predicted Effect probably benign
Transcript: ENSMUST00000073127
AA Change: Y111N

PolyPhen 2 Score 0.047 (Sensitivity: 0.94; Specificity: 0.83)
SMART Domains Protein: ENSMUSP00000072871
Gene: ENSMUSG00000035024
AA Change: Y111N

DomainStartEndE-ValueType
low complexity region 159 170 N/A INTRINSIC
low complexity region 173 184 N/A INTRINSIC
Pfam:Cnd1 949 1148 1.7e-46 PFAM
low complexity region 1192 1200 N/A INTRINSIC
coiled coil region 1213 1270 N/A INTRINSIC
low complexity region 1290 1315 N/A INTRINSIC
low complexity region 1393 1410 N/A INTRINSIC
low complexity region 1485 1498 N/A INTRINSIC
Predicted Effect probably benign
Transcript: ENSMUST00000086198
AA Change: Y111N

PolyPhen 2 Score 0.012 (Sensitivity: 0.96; Specificity: 0.78)
SMART Domains Protein: ENSMUSP00000083374
Gene: ENSMUSG00000035024
AA Change: Y111N

DomainStartEndE-ValueType
low complexity region 159 170 N/A INTRINSIC
low complexity region 173 184 N/A INTRINSIC
Pfam:Cohesin_HEAT 536 560 4.6e-5 PFAM
Pfam:Cnd1 949 1148 6.6e-59 PFAM
low complexity region 1192 1200 N/A INTRINSIC
Predicted Effect probably benign
Transcript: ENSMUST00000216677
AA Change: Y111N

PolyPhen 2 Score 0.047 (Sensitivity: 0.94; Specificity: 0.83)
Predicted Effect noncoding transcript
Transcript: ENSMUST00000217311
Meta Mutation Damage Score 0.1066 question?
Coding Region Coverage
  • 1x: 99.4%
  • 3x: 98.9%
  • 10x: 97.6%
  • 20x: 95.2%
Validation Efficiency 98% (119/122)
MGI Phenotype FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] Condensin complexes I and II play essential roles in mitotic chromosome assembly and segregation. Both condensins contain 2 invariant structural maintenance of chromosome (SMC) subunits, SMC2 (MIM 605576) and SMC4 (MIM 605575), but they contain different sets of non-SMC subunits. NCAPD3 is 1 of 3 non-SMC subunits that define condensin II (Ono et al., 2003 [PubMed 14532007]).[supplied by OMIM, Mar 2008]
Allele List at MGI
Other mutations in this stock
Total: 119 list
GeneRefVarChr/LocMutationPredicted EffectZygosity
4930596D02Rik T G 14: 35,532,146 (GRCm39) D143A probably damaging Het
Abca9 C T 11: 110,007,884 (GRCm39) probably null Het
Abcc5 A G 16: 20,223,309 (GRCm39) probably benign Het
Ablim3 T A 18: 61,982,441 (GRCm39) D168V probably benign Het
Acsl3 C T 1: 78,673,896 (GRCm39) S352F probably damaging Het
Adgrl4 A T 3: 151,204,066 (GRCm39) probably benign Het
Arhgap29 A G 3: 121,784,759 (GRCm39) K229E probably damaging Het
Atad3a A T 4: 155,831,864 (GRCm39) V470D probably damaging Het
Atp8b1 A G 18: 64,704,724 (GRCm39) probably null Het
Bcl2 G A 1: 106,640,292 (GRCm39) R107C probably damaging Het
Bpifa5 A G 2: 154,006,175 (GRCm39) N121S possibly damaging Het
Bpifb4 G A 2: 153,789,203 (GRCm39) probably benign Het
Bptf T A 11: 106,952,518 (GRCm39) T2112S probably benign Het
Btnl4 T C 17: 34,688,285 (GRCm39) K498E probably benign Het
Calhm2 A G 19: 47,129,469 (GRCm39) probably null Het
Capn3 A T 2: 120,333,077 (GRCm39) probably null Het
Caps2 T C 10: 112,031,695 (GRCm39) F265L possibly damaging Het
Casp3 G T 8: 47,089,262 (GRCm39) C170F probably benign Het
Ccdc39 T C 3: 33,873,988 (GRCm39) R615G probably damaging Het
Cd177 A G 7: 24,451,738 (GRCm39) I426T probably benign Het
Cfap53 G A 18: 74,433,221 (GRCm39) R102H possibly damaging Het
Cfhr3 G A 1: 139,521,623 (GRCm39) noncoding transcript Het
Col7a1 T C 9: 108,809,652 (GRCm39) probably benign Het
Cplx3 T C 9: 57,513,357 (GRCm39) E24G possibly damaging Het
Dhx30 A G 9: 109,915,782 (GRCm39) probably null Het
Dnah8 T A 17: 30,927,332 (GRCm39) N1329K probably benign Het
Dnajc11 C G 4: 152,054,393 (GRCm39) R200G probably damaging Het
Dok3 A T 13: 55,672,076 (GRCm39) F201I probably benign Het
Dpf2 A T 19: 5,952,240 (GRCm39) H303Q probably damaging Het
Dtnb A G 12: 3,785,039 (GRCm39) probably benign Het
Dync2i1 T C 12: 116,219,555 (GRCm39) D129G possibly damaging Het
Elk3 T C 10: 93,101,343 (GRCm39) E136G probably damaging Het
Ephb1 T C 9: 102,072,329 (GRCm39) D150G probably damaging Het
Erbb3 A G 10: 128,412,881 (GRCm39) S570P probably benign Het
F2 A T 2: 91,463,656 (GRCm39) probably null Het
Fanca A T 8: 124,035,252 (GRCm39) M231K probably damaging Het
Fbxo34 T C 14: 47,767,714 (GRCm39) V358A probably benign Het
Foxp1 C T 6: 98,907,083 (GRCm39) E666K probably damaging Het
Fto A G 8: 92,128,430 (GRCm39) probably null Het
Gbp2 C T 3: 142,336,519 (GRCm39) R290C possibly damaging Het
Gm57859 T A 11: 113,578,712 (GRCm39) S36T probably benign Het
Grik2 T G 10: 49,298,693 (GRCm39) S343R probably damaging Het
Heatr5b A T 17: 79,075,974 (GRCm39) M1448K probably benign Het
Hmgn3 A T 9: 83,028,482 (GRCm39) probably null Het
Htt T C 5: 35,003,347 (GRCm39) V1274A probably benign Het
Kcnh8 A G 17: 53,201,033 (GRCm39) D489G probably damaging Het
Kcnip3 A T 2: 127,300,317 (GRCm39) probably benign Het
Kdm5a A G 6: 120,379,632 (GRCm39) T647A possibly damaging Het
Krt72 T C 15: 101,694,491 (GRCm39) R135G probably damaging Het
Larp7 T A 3: 127,337,858 (GRCm39) K400N probably damaging Het
Lifr T C 15: 7,198,753 (GRCm39) probably null Het
Lima1 G A 15: 99,678,353 (GRCm39) P696L probably damaging Het
Lrrc8e T G 8: 4,285,239 (GRCm39) probably null Het
Map1a A G 2: 121,129,083 (GRCm39) R116G probably damaging Het
Map3k13 A G 16: 21,723,999 (GRCm39) E327G possibly damaging Het
Med13 A G 11: 86,236,788 (GRCm39) V123A possibly damaging Het
Megf8 A C 7: 25,027,965 (GRCm39) H205P probably benign Het
Met G A 6: 17,555,631 (GRCm39) probably null Het
Mfsd14b A C 13: 65,234,964 (GRCm39) V71G possibly damaging Het
Mpl T A 4: 118,300,733 (GRCm39) T599S probably benign Het
Myh15 A T 16: 48,881,944 (GRCm39) D62V probably damaging Het
Myo5a A G 9: 75,081,297 (GRCm39) T961A probably benign Het
Myrfl A G 10: 116,612,665 (GRCm39) Y895H probably damaging Het
Nap1l1 T C 10: 111,326,224 (GRCm39) probably benign Het
Nlrc3 A G 16: 3,766,113 (GRCm39) probably benign Het
Nsun2 G T 13: 69,781,361 (GRCm39) V657L probably benign Het
Or10g1b C A 14: 52,627,283 (GRCm39) G316* probably null Het
Or4a74 T A 2: 89,439,564 (GRCm39) N294I probably benign Het
Or4b13 T C 2: 90,083,278 (GRCm39) D18G probably benign Het
Or52d1 A T 7: 103,756,349 (GRCm39) I288F possibly damaging Het
Or52e19 T C 7: 102,959,371 (GRCm39) S148P probably damaging Het
Or5k3 G A 16: 58,970,117 (GRCm39) M301I probably benign Het
Or5m13b A T 2: 85,753,722 (GRCm39) I37F probably benign Het
Or6c68 T A 10: 129,157,885 (GRCm39) M131K possibly damaging Het
Osbpl3 A T 6: 50,276,383 (GRCm39) V795D probably benign Het
Osbpl5 T C 7: 143,263,286 (GRCm39) D155G probably damaging Het
Parm1 G A 5: 91,742,123 (GRCm39) V164I probably benign Het
Pgd A T 4: 149,241,267 (GRCm39) probably benign Het
Pkp1 G A 1: 135,805,920 (GRCm39) R593W probably damaging Het
Polr2l A T 7: 141,053,255 (GRCm39) V53E probably damaging Het
Ppp4c G T 7: 126,386,460 (GRCm39) T29K probably benign Het
Ppp4r4 T A 12: 103,566,779 (GRCm39) probably benign Het
Ptprd A G 4: 76,018,711 (GRCm39) S688P probably benign Het
Rab3b A T 4: 108,747,586 (GRCm39) I28F probably damaging Het
Rnase4 T C 14: 51,342,552 (GRCm39) L92P probably benign Het
Rnpc3 T C 3: 113,413,755 (GRCm39) E229G probably benign Het
Rtraf A T 14: 19,866,274 (GRCm39) D147E possibly damaging Het
Rttn G A 18: 89,061,090 (GRCm39) G1086D probably benign Het
Ryr2 A G 13: 11,720,519 (GRCm39) probably null Het
Sft2d2 T C 1: 165,011,430 (GRCm39) I126V probably benign Het
Skap1 G T 11: 96,614,236 (GRCm39) probably benign Het
Slc14a2 A T 18: 78,200,394 (GRCm39) L753* probably null Het
Slc25a5 G A X: 36,059,408 (GRCm39) A9T probably benign Het
Slc30a5 T C 13: 100,951,278 (GRCm39) probably benign Het
Slc5a4b A C 10: 75,899,870 (GRCm39) I456S possibly damaging Het
Slc9a4 A T 1: 40,642,230 (GRCm39) S400C probably damaging Het
Slx1b T A 7: 126,291,812 (GRCm39) H84L probably damaging Het
Sptbn1 T C 11: 30,100,008 (GRCm39) Y190C probably damaging Het
Stk32b T C 5: 37,688,910 (GRCm39) Q138R probably damaging Het
Syt6 C A 3: 103,528,206 (GRCm39) D308E probably damaging Het
Sytl2 G A 7: 90,044,374 (GRCm39) D572N probably damaging Het
Taok2 A T 7: 126,478,605 (GRCm39) L109Q probably damaging Het
Tbl1xr1 T C 3: 22,233,483 (GRCm39) probably benign Het
Tlk1 A G 2: 70,544,502 (GRCm39) I711T probably benign Het
Trf A G 9: 103,100,132 (GRCm39) probably null Het
Trpc2 A G 7: 101,733,572 (GRCm39) T548A possibly damaging Het
Ttbk2 A T 2: 120,655,777 (GRCm39) I29N possibly damaging Het
Tti1 A T 2: 157,835,292 (GRCm39) C989S probably damaging Het
Txndc8 A G 4: 58,000,256 (GRCm39) Y108H probably benign Het
Ugt2b1 A T 5: 87,065,539 (GRCm39) V500D possibly damaging Het
Vmn1r34 A G 6: 66,614,648 (GRCm39) I30T possibly damaging Het
Vmn2r115 A G 17: 23,579,074 (GRCm39) K849R probably null Het
Vmn2r76 T A 7: 85,875,323 (GRCm39) probably null Het
Vps13c T A 9: 67,834,754 (GRCm39) S1694R probably benign Het
Wdfy3 G T 5: 101,984,038 (GRCm39) P3509T probably benign Het
Wdr59 GGGTGGTG GGGTG 8: 112,207,172 (GRCm39) probably benign Het
Wnt8b T A 19: 44,482,106 (GRCm39) W40R probably benign Het
Xrra1 A G 7: 99,560,175 (GRCm39) I384V possibly damaging Het
Zfp11 A T 5: 129,734,971 (GRCm39) H163Q probably damaging Het
Other mutations in Ncapd3
AlleleSourceChrCoordTypePredicted EffectPPH Score
IGL00339:Ncapd3 APN 9 26,963,649 (GRCm39) missense probably benign
IGL00544:Ncapd3 APN 9 26,974,634 (GRCm39) missense possibly damaging 0.94
IGL01657:Ncapd3 APN 9 26,983,120 (GRCm39) missense possibly damaging 0.81
IGL01979:Ncapd3 APN 9 26,983,261 (GRCm39) critical splice donor site probably null
IGL02073:Ncapd3 APN 9 26,974,612 (GRCm39) missense probably benign 0.03
IGL02083:Ncapd3 APN 9 26,963,117 (GRCm39) missense probably damaging 1.00
IGL02383:Ncapd3 APN 9 26,961,624 (GRCm39) missense probably benign 0.44
IGL02429:Ncapd3 APN 9 27,000,598 (GRCm39) missense probably benign 0.08
IGL02437:Ncapd3 APN 9 26,975,264 (GRCm39) splice site probably benign
IGL02861:Ncapd3 APN 9 26,981,195 (GRCm39) missense probably benign 0.00
IGL03202:Ncapd3 APN 9 26,983,011 (GRCm39) splice site probably benign
IGL03219:Ncapd3 APN 9 26,975,169 (GRCm39) splice site probably benign
IGL03252:Ncapd3 APN 9 26,962,745 (GRCm39) missense probably damaging 1.00
pevensie UTSW 9 26,997,342 (GRCm39) missense probably damaging 1.00
R0015:Ncapd3 UTSW 9 26,963,105 (GRCm39) missense probably damaging 1.00
R0015:Ncapd3 UTSW 9 26,963,105 (GRCm39) missense probably damaging 1.00
R0084:Ncapd3 UTSW 9 26,967,407 (GRCm39) missense probably damaging 0.98
R0491:Ncapd3 UTSW 9 26,969,179 (GRCm39) missense probably damaging 0.97
R0513:Ncapd3 UTSW 9 26,975,401 (GRCm39) splice site probably benign
R0565:Ncapd3 UTSW 9 26,999,294 (GRCm39) missense probably benign 0.00
R0671:Ncapd3 UTSW 9 26,998,773 (GRCm39) missense probably benign 0.00
R0673:Ncapd3 UTSW 9 26,998,773 (GRCm39) missense probably benign 0.00
R0842:Ncapd3 UTSW 9 26,948,380 (GRCm39) missense probably benign 0.01
R1178:Ncapd3 UTSW 9 26,952,717 (GRCm39) missense probably benign
R1366:Ncapd3 UTSW 9 26,969,236 (GRCm39) missense probably damaging 1.00
R1432:Ncapd3 UTSW 9 26,981,168 (GRCm39) splice site probably benign
R1439:Ncapd3 UTSW 9 26,998,862 (GRCm39) critical splice donor site probably null
R1532:Ncapd3 UTSW 9 26,994,656 (GRCm39) nonsense probably null
R2131:Ncapd3 UTSW 9 26,994,642 (GRCm39) missense probably damaging 0.98
R2178:Ncapd3 UTSW 9 26,999,845 (GRCm39) missense probably benign 0.01
R2238:Ncapd3 UTSW 9 26,978,320 (GRCm39) missense probably benign
R2258:Ncapd3 UTSW 9 26,967,368 (GRCm39) missense probably benign 0.16
R2259:Ncapd3 UTSW 9 26,967,368 (GRCm39) missense probably benign 0.16
R2260:Ncapd3 UTSW 9 26,967,368 (GRCm39) missense probably benign 0.16
R2297:Ncapd3 UTSW 9 26,952,797 (GRCm39) nonsense probably null
R2877:Ncapd3 UTSW 9 26,955,783 (GRCm39) splice site probably null
R3612:Ncapd3 UTSW 9 26,961,653 (GRCm39) missense probably damaging 1.00
R3709:Ncapd3 UTSW 9 26,963,645 (GRCm39) missense probably benign 0.00
R3791:Ncapd3 UTSW 9 26,963,931 (GRCm39) missense probably benign 0.27
R4052:Ncapd3 UTSW 9 27,000,679 (GRCm39) splice site probably null
R4297:Ncapd3 UTSW 9 26,963,623 (GRCm39) missense probably benign
R4299:Ncapd3 UTSW 9 26,963,623 (GRCm39) missense probably benign
R4441:Ncapd3 UTSW 9 26,962,941 (GRCm39) missense possibly damaging 0.81
R4572:Ncapd3 UTSW 9 27,005,911 (GRCm39) missense probably damaging 1.00
R4675:Ncapd3 UTSW 9 27,006,038 (GRCm39) unclassified probably benign
R4790:Ncapd3 UTSW 9 26,963,146 (GRCm39) missense probably benign 0.00
R4835:Ncapd3 UTSW 9 26,997,342 (GRCm39) missense probably damaging 1.00
R4919:Ncapd3 UTSW 9 26,963,071 (GRCm39) missense possibly damaging 0.95
R4928:Ncapd3 UTSW 9 26,983,031 (GRCm39) nonsense probably null
R4939:Ncapd3 UTSW 9 26,975,165 (GRCm39) critical splice donor site probably null
R4980:Ncapd3 UTSW 9 26,974,591 (GRCm39) missense probably damaging 0.99
R5030:Ncapd3 UTSW 9 26,983,062 (GRCm39) missense probably damaging 0.98
R5052:Ncapd3 UTSW 9 26,963,015 (GRCm39) missense probably damaging 1.00
R5180:Ncapd3 UTSW 9 26,962,941 (GRCm39) missense possibly damaging 0.81
R5343:Ncapd3 UTSW 9 26,999,349 (GRCm39) small deletion probably benign
R5656:Ncapd3 UTSW 9 26,962,941 (GRCm39) missense possibly damaging 0.81
R5840:Ncapd3 UTSW 9 27,006,054 (GRCm39) missense probably benign 0.00
R5900:Ncapd3 UTSW 9 26,978,265 (GRCm39) missense probably benign 0.26
R6093:Ncapd3 UTSW 9 26,967,454 (GRCm39) missense probably damaging 0.99
R6122:Ncapd3 UTSW 9 26,975,278 (GRCm39) missense probably benign 0.00
R6249:Ncapd3 UTSW 9 26,999,349 (GRCm39) small deletion probably benign
R6428:Ncapd3 UTSW 9 26,963,960 (GRCm39) splice site probably null
R6432:Ncapd3 UTSW 9 26,955,805 (GRCm39) missense probably damaging 0.98
R6441:Ncapd3 UTSW 9 26,974,712 (GRCm39) missense probably benign 0.03
R6459:Ncapd3 UTSW 9 26,963,051 (GRCm39) missense probably benign 0.00
R6567:Ncapd3 UTSW 9 26,978,300 (GRCm39) missense possibly damaging 0.83
R6722:Ncapd3 UTSW 9 26,998,852 (GRCm39) missense probably benign
R6862:Ncapd3 UTSW 9 26,942,105 (GRCm39) missense probably damaging 0.98
R7234:Ncapd3 UTSW 9 26,961,655 (GRCm39) missense probably damaging 0.97
R7286:Ncapd3 UTSW 9 26,981,254 (GRCm39) missense probably damaging 1.00
R7404:Ncapd3 UTSW 9 26,978,315 (GRCm39) missense probably benign 0.01
R7541:Ncapd3 UTSW 9 26,978,336 (GRCm39) missense probably damaging 0.99
R7583:Ncapd3 UTSW 9 26,983,144 (GRCm39) missense probably damaging 1.00
R7655:Ncapd3 UTSW 9 26,966,801 (GRCm39) missense possibly damaging 0.47
R7656:Ncapd3 UTSW 9 26,966,801 (GRCm39) missense possibly damaging 0.47
R7815:Ncapd3 UTSW 9 26,974,736 (GRCm39) nonsense probably null
R7876:Ncapd3 UTSW 9 26,956,519 (GRCm39) critical splice donor site probably null
R7913:Ncapd3 UTSW 9 26,959,522 (GRCm39) nonsense probably null
R8068:Ncapd3 UTSW 9 26,974,657 (GRCm39) missense possibly damaging 0.66
R8147:Ncapd3 UTSW 9 26,942,014 (GRCm39) start gained probably benign
R8197:Ncapd3 UTSW 9 26,997,329 (GRCm39) missense probably damaging 0.98
R8264:Ncapd3 UTSW 9 27,006,038 (GRCm39) unclassified probably benign
R8353:Ncapd3 UTSW 9 26,983,100 (GRCm39) missense probably benign 0.03
R8539:Ncapd3 UTSW 9 26,959,520 (GRCm39) missense probably benign
R8839:Ncapd3 UTSW 9 27,005,730 (GRCm39) missense
R8917:Ncapd3 UTSW 9 26,999,297 (GRCm39) missense probably benign
R8997:Ncapd3 UTSW 9 26,959,577 (GRCm39) missense probably damaging 1.00
R9215:Ncapd3 UTSW 9 26,975,386 (GRCm39) missense possibly damaging 0.51
R9393:Ncapd3 UTSW 9 26,962,682 (GRCm39) missense possibly damaging 0.54
R9412:Ncapd3 UTSW 9 26,967,451 (GRCm39) nonsense probably null
R9688:Ncapd3 UTSW 9 26,967,349 (GRCm39) missense probably benign 0.01
R9746:Ncapd3 UTSW 9 26,974,655 (GRCm39) missense probably benign
R9749:Ncapd3 UTSW 9 26,956,873 (GRCm39) missense probably benign 0.14
Predicted Primers PCR Primer
(F):5'- GGCTCAGATTCAGGCAGGAACAAC -3'
(R):5'- TGCCACAGGCGTAAGAAGATACAC -3'

Sequencing Primer
(F):5'- tgtgtgtgtgtgtgtTTAAGG -3'
(R):5'- GCGTAAGAAGATACACATTAGCAAC -3'
Posted On 2013-07-11