Incidental Mutation 'R9688:Ncapd3'
ID 728985
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
Accession Numbers
Essential gene? Probably essential (E-score: 0.962) question?
Stock # R9688 (G1)
Quality Score 225.009
Status Not validated
Chromosome 9
Chromosomal Location 26941471-27006611 bp(+) (GRCm39)
Type of Mutation missense
DNA Base Change (assembly) A to G at 26967349 bp (GRCm39)
Zygosity Heterozygous
Amino Acid Change Serine to Glycine at position 562 (S562G)
Ref Sequence ENSEMBL: ENSMUSP00000083374 (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: S562G

PolyPhen 2 Score 0.023 (Sensitivity: 0.95; Specificity: 0.81)
SMART Domains Protein: ENSMUSP00000072871
Gene: ENSMUSG00000035024
AA Change: S562G

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: S562G

PolyPhen 2 Score 0.014 (Sensitivity: 0.96; Specificity: 0.79)
SMART Domains Protein: ENSMUSP00000083374
Gene: ENSMUSG00000035024
AA Change: S562G

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: S562G

PolyPhen 2 Score 0.023 (Sensitivity: 0.95; Specificity: 0.81)
Coding Region Coverage
  • 1x: 100.0%
  • 3x: 100.0%
  • 10x: 99.8%
  • 20x: 99.3%
Validation Efficiency
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: 69 list
GeneRefVarChr/LocMutationPredicted EffectZygosity
1700093K21Rik A G 11: 23,469,067 (GRCm39) probably null Het
Abca2 G C 2: 25,324,459 (GRCm39) A272P possibly damaging Het
Adarb1 T A 10: 77,147,099 (GRCm39) D479V probably damaging Het
Amz2 T C 11: 109,320,765 (GRCm39) F162S probably damaging Het
Ano4 A T 10: 89,180,506 (GRCm39) M1K probably null Het
Antxr1 G A 6: 87,114,334 (GRCm39) R478C probably damaging Het
Apobr T C 7: 126,186,663 (GRCm39) S725P probably benign Het
Arap2 A T 5: 62,872,109 (GRCm39) D506E probably damaging Het
Ash1l T G 3: 88,892,024 (GRCm39) I1301S probably damaging Het
Camk1g T A 1: 193,031,029 (GRCm39) R305W probably damaging Het
Ces2g A T 8: 105,691,304 (GRCm39) I147F probably benign Het
Cfap61 T C 2: 145,878,758 (GRCm39) F505L probably damaging Het
Cndp1 G C 18: 84,655,982 (GRCm39) N62K probably benign Het
Cog6 G T 3: 52,916,528 (GRCm39) Q214K probably benign Het
Depdc5 T A 5: 33,055,276 (GRCm39) Y226* probably null Het
Elp5 T A 11: 69,861,425 (GRCm39) I185F probably damaging Het
Ercc6 A C 14: 32,297,755 (GRCm39) H1334P probably benign Het
Ern1 T C 11: 106,349,836 (GRCm39) T27A possibly damaging Het
Esf1 A T 2: 140,010,095 (GRCm39) D80E probably damaging Het
Evpl T C 11: 116,124,986 (GRCm39) K159E probably damaging Het
Gbx1 T C 5: 24,731,510 (GRCm39) Y102C probably damaging Het
Gjd2 A G 2: 113,842,109 (GRCm39) S123P probably benign Het
H2-M11 A G 17: 36,859,054 (GRCm39) Y198C probably damaging Het
Hps1 A C 19: 42,755,147 (GRCm39) V265G probably benign Het
Ifna16 C A 4: 88,594,874 (GRCm39) E74* probably null Het
Inca1 C T 11: 70,579,810 (GRCm39) probably null Het
Jag2 A G 12: 112,872,564 (GRCm39) V1230A probably benign Het
Jam3 G A 9: 27,010,204 (GRCm39) T260M probably benign Het
Klhl5 A T 5: 65,321,930 (GRCm39) D652V probably damaging Het
L3mbtl1 A T 2: 162,790,697 (GRCm39) I81L possibly damaging Het
Lgalsl C T 11: 20,779,442 (GRCm39) A68T probably benign Het
Map3k14 T A 11: 103,130,059 (GRCm39) D286V possibly damaging Het
Mdn1 A G 4: 32,745,590 (GRCm39) I4083V probably damaging Het
Ms4a5 T C 19: 11,254,058 (GRCm39) I136M possibly damaging Het
Mtcl3 T C 10: 29,072,691 (GRCm39) V661A possibly damaging Het
Naa16 A T 14: 79,573,309 (GRCm39) Y820* probably null Het
Nbea G T 3: 55,557,165 (GRCm39) N2537K probably benign Het
Or5t5 A C 2: 86,617,005 (GRCm39) K310N probably damaging Het
Or6c1b C A 10: 129,272,967 (GRCm39) C95* probably null Het
Pcdhac2 A G 18: 37,277,628 (GRCm39) S203G probably benign Het
Pds5a A T 5: 65,812,196 (GRCm39) F309I probably benign Het
Pdzd8 G A 19: 59,333,683 (GRCm39) L113F probably benign Het
Pex12 T C 11: 83,189,257 (GRCm39) Y4C possibly damaging Het
Ppfibp2 A G 7: 107,318,448 (GRCm39) D332G probably benign Het
Psg23 A T 7: 18,344,547 (GRCm39) W303R probably damaging Het
Pyy T A 11: 101,998,099 (GRCm39) D27V probably damaging Het
Rc3h1 A G 1: 160,770,234 (GRCm39) Q302R probably damaging Het
Rhoh A G 5: 66,049,656 (GRCm39) probably benign Het
Samd9l A G 6: 3,377,087 (GRCm39) M58T probably damaging Het
Scaf11 A C 15: 96,313,808 (GRCm39) H1324Q probably damaging Het
Serinc2 C A 4: 130,158,133 (GRCm39) A105S probably damaging Het
Setx A T 2: 29,036,328 (GRCm39) S938C probably damaging Het
Sgo2a A T 1: 58,056,737 (GRCm39) T974S probably damaging Het
Sh3rf1 T C 8: 61,679,348 (GRCm39) V130A probably benign Het
Slc43a2 T C 11: 75,434,112 (GRCm39) F97L probably damaging Het
Slc9a9 C A 9: 95,111,107 (GRCm39) Q642K probably benign Het
Sox6 G T 7: 115,076,225 (GRCm39) D804E probably benign Het
Tbx15 A T 3: 99,233,708 (GRCm39) R290S possibly damaging Het
Tent4a A G 13: 69,655,199 (GRCm39) L425P probably damaging Het
Terf2 A G 8: 107,821,543 (GRCm39) S176P probably damaging Het
Ttc6 A T 12: 57,720,602 (GRCm39) H956L possibly damaging Het
Tti2 T C 8: 31,644,279 (GRCm39) V292A probably damaging Het
Vmn1r29 A T 6: 58,284,739 (GRCm39) E153V probably benign Het
Vmn1r55 G T 7: 5,149,669 (GRCm39) H251Q probably benign Het
Yeats4 T C 10: 117,051,586 (GRCm39) T224A probably benign Het
Yipf4 T A 17: 74,806,078 (GRCm39) F239Y probably benign Het
Zan T C 5: 137,466,717 (GRCm39) D380G probably damaging Het
Zbtb9 T C 17: 27,193,894 (GRCm39) F433S probably damaging Het
Zic5 T C 14: 122,701,435 (GRCm39) K432R unknown 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
R0601:Ncapd3 UTSW 9 26,952,803 (GRCm39) missense probably benign 0.05
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
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'- CAGACCACCTTTCATTTCAGTAG -3'
(R):5'- GCCTGAAGCCTACTACGAGTAC -3'

Sequencing Primer
(F):5'- GACCACCTTTCATTTCAGTAGATTTG -3'
(R):5'- GAACTGCTTCTGATGCAAGGCAC -3'
Posted On 2022-10-06