Incidental Mutation 'R1794:Cc2d2a'
ID 202033
Institutional Source Beutler Lab
Gene Symbol Cc2d2a
Ensembl Gene ENSMUSG00000039765
Gene Name coiled-coil and C2 domain containing 2A
Synonyms b2b1035Clo, 5730509K17Rik
MMRRC Submission 039824-MU
Accession Numbers

Genbank: NM_172274; MGI: 1924487

Essential gene? Probably essential (E-score: 0.874) question?
Stock # R1794 (G1)
Quality Score 222
Status Not validated
Chromosome 5
Chromosomal Location 43662346-43740972 bp(+) (GRCm38)
Type of Mutation missense
DNA Base Change (assembly) C to A at 43688252 bp (GRCm38)
Zygosity Heterozygous
Amino Acid Change Glutamine to Lysine at position 288 (Q288K)
Ref Sequence ENSEMBL: ENSMUSP00000114349 (fasta)
Gene Model predicted gene model for transcript(s): [ENSMUST00000048150] [ENSMUST00000125866]
AlphaFold Q8CFW7
Predicted Effect probably damaging
Transcript: ENSMUST00000048150
AA Change: Q337K

PolyPhen 2 Score 0.979 (Sensitivity: 0.75; Specificity: 0.96)
SMART Domains Protein: ENSMUSP00000048320
Gene: ENSMUSG00000039765
AA Change: Q337K

DomainStartEndE-ValueType
low complexity region 26 41 N/A INTRINSIC
low complexity region 58 67 N/A INTRINSIC
low complexity region 124 136 N/A INTRINSIC
low complexity region 203 217 N/A INTRINSIC
coiled coil region 472 501 N/A INTRINSIC
coiled coil region 553 582 N/A INTRINSIC
Pfam:CC2D2AN-C2 645 817 2e-36 PFAM
low complexity region 1005 1017 N/A INTRINSIC
low complexity region 1024 1036 N/A INTRINSIC
C2 1048 1208 3.43e-5 SMART
Predicted Effect probably damaging
Transcript: ENSMUST00000125866
AA Change: Q288K

PolyPhen 2 Score 0.996 (Sensitivity: 0.55; Specificity: 0.98)
SMART Domains Protein: ENSMUSP00000114349
Gene: ENSMUSG00000039765
AA Change: Q288K

DomainStartEndE-ValueType
low complexity region 9 18 N/A INTRINSIC
low complexity region 75 87 N/A INTRINSIC
low complexity region 154 168 N/A INTRINSIC
coiled coil region 423 452 N/A INTRINSIC
coiled coil region 504 533 N/A INTRINSIC
Pfam:CC2D2AN-C2 596 768 7.7e-44 PFAM
low complexity region 970 982 N/A INTRINSIC
C2 994 1154 2.3e-7 SMART
Predicted Effect noncoding transcript
Transcript: ENSMUST00000142303
Coding Region Coverage
  • 1x: 97.4%
  • 3x: 96.7%
  • 10x: 94.8%
  • 20x: 91.1%
Validation Efficiency
MGI Phenotype FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] This gene encodes a coiled-coil and calcium binding domain protein that appears to play a critical role in cilia formation. Mutations in this gene cause Meckel syndrome type 6, as well as Joubert syndrome type 9. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Sep 2009]
PHENOTYPE: Mice homozygous for a null allele exhibit embryonic lethality with multiorgan defects related to cilia biogenesis. Homozygotes for a gene trap allele show randomized body axis, holoprosencephaly, and microphthalmia. Homozygotes for an ENU-induced allele show heterotaxia, congenital heart anomalies, kidney and eye defects, polydactyly, and cleft palate. [provided by MGI curators]
Allele List at MGI

All alleles(5) : Targeted, other(4) Gene trapped(1)

Other mutations in this stock
Total: 72 list
GeneRefVarChr/LocMutationPredicted EffectZygosity
1700014D04Rik T C 13: 59,742,620 (GRCm38) E44G probably benign Het
Anxa7 A G 14: 20,471,467 (GRCm38) Y54H unknown Het
Arhgef3 A G 14: 27,397,605 (GRCm38) T331A probably benign Het
Arhgef40 G T 14: 51,989,930 (GRCm38) C477F possibly damaging Het
Arsi G A 18: 60,916,651 (GRCm38) G202E probably benign Het
Atp13a5 C A 16: 29,321,709 (GRCm38) R343L probably damaging Het
Brdt ACAGCAGCAGCAGCAGC ACAGCAGCAGCAGC 5: 107,359,853 (GRCm38) probably benign Het
Btbd2 G T 10: 80,643,913 (GRCm38) D426E probably damaging Het
Cabin1 A C 10: 75,725,745 (GRCm38) I974R possibly damaging Het
Cacna1i G A 15: 80,389,122 (GRCm38) V1670M probably damaging Het
Ccl20 T A 1: 83,117,829 (GRCm38) I37K possibly damaging Het
Cdcp1 T C 9: 123,215,831 (GRCm38) T27A probably benign Het
Cdcp1 A G 9: 123,190,094 (GRCm38) V40A probably benign Het
Cdh4 C T 2: 179,886,842 (GRCm38) T581I probably damaging Het
Cgn A G 3: 94,762,557 (GRCm38) probably null Het
Col7a1 G A 9: 108,965,928 (GRCm38) G1493D unknown Het
Creb3 A G 4: 43,563,302 (GRCm38) E133G probably benign Het
Dchs1 T C 7: 105,771,720 (GRCm38) T498A probably benign Het
Dis3l A C 9: 64,317,776 (GRCm38) V413G possibly damaging Het
Dnah6 T C 6: 73,024,958 (GRCm38) E3865G probably damaging Het
Fam219b A G 9: 57,539,281 (GRCm38) Y139C probably damaging Het
Fat3 A T 9: 15,997,138 (GRCm38) Y2523N probably benign Het
Fat3 A T 9: 15,997,136 (GRCm38) Y2523* probably null Het
Fmnl1 T C 11: 103,197,147 (GRCm38) S40P probably benign Het
Gm17727 T A 9: 35,777,122 (GRCm38) I56F probably benign Het
Gm4792 T C 10: 94,298,490 (GRCm38) D6G unknown Het
Hhat G T 1: 192,693,906 (GRCm38) Y306* probably null Het
Hmcn1 A G 1: 150,598,285 (GRCm38) I4802T probably benign Het
Hmcn1 G A 1: 150,627,152 (GRCm38) T3908I probably damaging Het
Hsph1 A T 5: 149,630,773 (GRCm38) N79K probably damaging Het
Ikbke T A 1: 131,259,218 (GRCm38) Y579F probably damaging Het
Jak2 A G 19: 29,299,557 (GRCm38) D838G probably benign Het
Klhdc7b T C 15: 89,387,020 (GRCm38) S702P probably benign Het
Lingo3 C A 10: 80,835,598 (GRCm38) R166L probably benign Het
Lins1 T C 7: 66,711,909 (GRCm38) F436S probably damaging Het
Lman1 T C 18: 65,991,684 (GRCm38) D328G probably benign Het
Lox A G 18: 52,528,307 (GRCm38) C232R probably damaging Het
Lrrc59 T C 11: 94,638,595 (GRCm38) V165A probably benign Het
Map9 A G 3: 82,380,221 (GRCm38) D50G probably damaging Het
March1 T A 8: 66,386,942 (GRCm38) Y126N possibly damaging Het
Mcf2l T C 8: 12,915,982 (GRCm38) F3L probably benign Het
Mslnl G A 17: 25,742,934 (GRCm38) V128M probably damaging Het
Nin G A 12: 70,043,795 (GRCm38) Q949* probably null Het
Nlgn3 A G X: 101,320,033 (GRCm38) H636R probably benign Het
Notch2 A G 3: 98,099,547 (GRCm38) D411G possibly damaging Het
Olfr1263 A G 2: 90,015,020 (GRCm38) Y30C probably damaging Het
Olfr1449 G C 19: 12,934,968 (GRCm38) A77P probably damaging Het
Plekha7 A G 7: 116,140,681 (GRCm38) V579A probably damaging Het
Prrc2c T C 1: 162,705,959 (GRCm38) probably benign Het
Rab7b T C 1: 131,697,068 (GRCm38) probably null Het
Reg3b G T 6: 78,372,214 (GRCm38) probably null Het
Rgs20 A G 1: 4,910,572 (GRCm38) Y177H probably damaging Het
Ripk3 G T 14: 55,785,329 (GRCm38) N379K probably benign Het
Rnf220 G T 4: 117,307,568 (GRCm38) Q7K probably benign Het
Ros1 T A 10: 52,124,103 (GRCm38) K1109* probably null Het
Slc22a7 T G 17: 46,433,153 (GRCm38) R460S probably damaging Het
Slc4a2 A G 5: 24,439,328 (GRCm38) M975V probably damaging Het
Slc4a3 A T 1: 75,557,308 (GRCm38) I1100F probably damaging Het
Smco1 A G 16: 32,274,132 (GRCm38) E207G probably benign Het
Snrnp200 A G 2: 127,216,736 (GRCm38) E369G probably benign Het
Tcf4 T A 18: 69,657,853 (GRCm38) M178K probably benign Het
Tex2 T C 11: 106,567,902 (GRCm38) probably benign Het
Tjp1 A T 7: 65,323,129 (GRCm38) I521N probably damaging Het
Tmem203 A G 2: 25,255,994 (GRCm38) T109A probably benign Het
Tmem50b T C 16: 91,578,029 (GRCm38) I126V probably benign Het
Ugcg C T 4: 59,207,798 (GRCm38) P46S probably benign Het
Ush2a T C 1: 188,862,809 (GRCm38) F3813L probably benign Het
Vmn1r203 C T 13: 22,524,351 (GRCm38) R101W probably damaging Het
Vmn2r79 G A 7: 87,001,413 (GRCm38) V136I probably benign Het
Wdr38 A G 2: 39,000,729 (GRCm38) Y205C probably damaging Het
Zfp248 A G 6: 118,429,303 (GRCm38) F442L probably damaging Het
Znrf4 A G 17: 56,511,599 (GRCm38) I236T probably damaging Het
Other mutations in Cc2d2a
AlleleSourceChrCoordTypePredicted EffectPPH Score
IGL00392:Cc2d2a APN 5 43,724,380 (GRCm38) splice site probably benign
IGL00937:Cc2d2a APN 5 43,688,122 (GRCm38) critical splice acceptor site probably null
IGL01322:Cc2d2a APN 5 43,689,003 (GRCm38) missense probably benign 0.00
IGL01349:Cc2d2a APN 5 43,723,784 (GRCm38) missense probably benign 0.01
IGL01448:Cc2d2a APN 5 43,684,185 (GRCm38) missense possibly damaging 0.65
IGL01871:Cc2d2a APN 5 43,688,969 (GRCm38) missense probably damaging 0.98
IGL01947:Cc2d2a APN 5 43,688,237 (GRCm38) missense probably damaging 0.96
IGL01976:Cc2d2a APN 5 43,683,115 (GRCm38) missense probably benign 0.02
IGL02113:Cc2d2a APN 5 43,685,248 (GRCm38) splice site probably null
IGL02364:Cc2d2a APN 5 43,735,450 (GRCm38) missense probably damaging 1.00
IGL02448:Cc2d2a APN 5 43,683,205 (GRCm38) splice site probably benign
IGL02458:Cc2d2a APN 5 43,718,554 (GRCm38) missense probably benign 0.01
IGL02542:Cc2d2a APN 5 43,688,910 (GRCm38) splice site probably benign
IGL02834:Cc2d2a APN 5 43,714,521 (GRCm38) nonsense probably null
IGL02940:Cc2d2a APN 5 43,728,294 (GRCm38) splice site probably null
IGL03003:Cc2d2a APN 5 43,671,266 (GRCm38) missense probably benign 0.22
IGL03183:Cc2d2a APN 5 43,732,379 (GRCm38) missense probably damaging 1.00
C9142:Cc2d2a UTSW 5 43,735,457 (GRCm38) splice site probably benign
P0028:Cc2d2a UTSW 5 43,684,199 (GRCm38) missense probably benign
R0193:Cc2d2a UTSW 5 43,736,118 (GRCm38) missense probably damaging 1.00
R0201:Cc2d2a UTSW 5 43,737,512 (GRCm38) missense probably damaging 1.00
R0211:Cc2d2a UTSW 5 43,688,266 (GRCm38) splice site probably null
R0243:Cc2d2a UTSW 5 43,696,638 (GRCm38) splice site probably benign
R0317:Cc2d2a UTSW 5 43,706,901 (GRCm38) critical splice donor site probably null
R0453:Cc2d2a UTSW 5 43,703,294 (GRCm38) missense probably benign 0.00
R0558:Cc2d2a UTSW 5 43,724,387 (GRCm38) splice site probably benign
R0624:Cc2d2a UTSW 5 43,730,029 (GRCm38) missense probably benign
R0634:Cc2d2a UTSW 5 43,681,381 (GRCm38) splice site probably benign
R1503:Cc2d2a UTSW 5 43,695,239 (GRCm38) missense probably damaging 1.00
R1635:Cc2d2a UTSW 5 43,722,470 (GRCm38) missense probably damaging 1.00
R1686:Cc2d2a UTSW 5 43,739,371 (GRCm38) missense possibly damaging 0.81
R1707:Cc2d2a UTSW 5 43,723,688 (GRCm38) splice site probably null
R1715:Cc2d2a UTSW 5 43,718,661 (GRCm38) missense probably damaging 0.97
R1765:Cc2d2a UTSW 5 43,714,531 (GRCm38) missense probably damaging 0.99
R1881:Cc2d2a UTSW 5 43,740,828 (GRCm38) missense probably damaging 0.99
R1917:Cc2d2a UTSW 5 43,706,222 (GRCm38) missense probably damaging 1.00
R2005:Cc2d2a UTSW 5 43,726,373 (GRCm38) critical splice donor site probably null
R2201:Cc2d2a UTSW 5 43,684,033 (GRCm38) splice site probably benign
R2244:Cc2d2a UTSW 5 43,732,433 (GRCm38) missense probably damaging 1.00
R2368:Cc2d2a UTSW 5 43,703,888 (GRCm38) missense probably benign
R2442:Cc2d2a UTSW 5 43,671,305 (GRCm38) critical splice donor site probably null
R2511:Cc2d2a UTSW 5 43,735,395 (GRCm38) missense probably damaging 0.99
R3023:Cc2d2a UTSW 5 43,685,251 (GRCm38) splice site probably null
R3147:Cc2d2a UTSW 5 43,709,155 (GRCm38) missense probably damaging 1.00
R3148:Cc2d2a UTSW 5 43,709,155 (GRCm38) missense probably damaging 1.00
R3426:Cc2d2a UTSW 5 43,736,109 (GRCm38) missense probably benign 0.00
R3609:Cc2d2a UTSW 5 43,712,326 (GRCm38) missense probably damaging 0.99
R3610:Cc2d2a UTSW 5 43,712,326 (GRCm38) missense probably damaging 0.99
R3611:Cc2d2a UTSW 5 43,712,326 (GRCm38) missense probably damaging 0.99
R3839:Cc2d2a UTSW 5 43,718,714 (GRCm38) missense probably benign
R3870:Cc2d2a UTSW 5 43,718,691 (GRCm38) nonsense probably null
R4334:Cc2d2a UTSW 5 43,683,134 (GRCm38) missense probably benign 0.00
R4913:Cc2d2a UTSW 5 43,739,323 (GRCm38) missense probably benign 0.12
R5179:Cc2d2a UTSW 5 43,688,221 (GRCm38) missense possibly damaging 0.82
R5315:Cc2d2a UTSW 5 43,720,433 (GRCm38) missense probably damaging 0.99
R5352:Cc2d2a UTSW 5 43,706,213 (GRCm38) missense probably damaging 1.00
R5386:Cc2d2a UTSW 5 43,730,041 (GRCm38) missense probably benign 0.01
R5538:Cc2d2a UTSW 5 43,695,176 (GRCm38) missense possibly damaging 0.94
R5568:Cc2d2a UTSW 5 43,709,091 (GRCm38) missense probably damaging 0.99
R5618:Cc2d2a UTSW 5 43,729,907 (GRCm38) missense probably benign 0.00
R5653:Cc2d2a UTSW 5 43,722,462 (GRCm38) missense possibly damaging 0.81
R5817:Cc2d2a UTSW 5 43,712,418 (GRCm38) missense probably damaging 1.00
R5858:Cc2d2a UTSW 5 43,715,775 (GRCm38) missense probably damaging 1.00
R5905:Cc2d2a UTSW 5 43,712,426 (GRCm38) missense probably benign
R5912:Cc2d2a UTSW 5 43,720,430 (GRCm38) missense probably damaging 0.97
R6073:Cc2d2a UTSW 5 43,729,975 (GRCm38) missense probably damaging 1.00
R6084:Cc2d2a UTSW 5 43,668,673 (GRCm38) missense probably benign
R6142:Cc2d2a UTSW 5 43,703,198 (GRCm38) missense probably damaging 0.97
R6176:Cc2d2a UTSW 5 43,709,113 (GRCm38) missense probably benign 0.32
R6238:Cc2d2a UTSW 5 43,671,235 (GRCm38) missense probably benign 0.11
R6381:Cc2d2a UTSW 5 43,715,776 (GRCm38) missense possibly damaging 0.69
R6404:Cc2d2a UTSW 5 43,704,074 (GRCm38) missense possibly damaging 0.58
R6455:Cc2d2a UTSW 5 43,739,412 (GRCm38) missense possibly damaging 0.69
R6695:Cc2d2a UTSW 5 43,718,677 (GRCm38) missense probably damaging 0.99
R6805:Cc2d2a UTSW 5 43,681,331 (GRCm38) missense probably damaging 1.00
R6919:Cc2d2a UTSW 5 43,703,215 (GRCm38) missense probably benign 0.19
R6970:Cc2d2a UTSW 5 43,718,585 (GRCm38) missense probably damaging 1.00
R7024:Cc2d2a UTSW 5 43,733,929 (GRCm38) missense probably benign 0.10
R7054:Cc2d2a UTSW 5 43,699,979 (GRCm38) nonsense probably null
R7071:Cc2d2a UTSW 5 43,709,113 (GRCm38) missense probably benign 0.13
R7098:Cc2d2a UTSW 5 43,683,139 (GRCm38) missense probably benign 0.00
R7366:Cc2d2a UTSW 5 43,729,990 (GRCm38) missense probably damaging 1.00
R7908:Cc2d2a UTSW 5 43,706,846 (GRCm38) missense probably benign 0.00
R7920:Cc2d2a UTSW 5 43,739,309 (GRCm38) missense probably benign 0.09
R7950:Cc2d2a UTSW 5 43,695,296 (GRCm38) critical splice donor site probably null
R8007:Cc2d2a UTSW 5 43,706,100 (GRCm38) missense possibly damaging 0.71
R8117:Cc2d2a UTSW 5 43,712,439 (GRCm38) missense probably damaging 1.00
R8123:Cc2d2a UTSW 5 43,710,554 (GRCm38) missense probably benign
R8179:Cc2d2a UTSW 5 43,699,953 (GRCm38) missense probably damaging 0.96
R8279:Cc2d2a UTSW 5 43,736,145 (GRCm38) missense probably benign 0.01
R8293:Cc2d2a UTSW 5 43,688,228 (GRCm38) missense probably damaging 0.97
R8480:Cc2d2a UTSW 5 43,685,144 (GRCm38) splice site probably null
R8482:Cc2d2a UTSW 5 43,695,239 (GRCm38) missense probably damaging 1.00
R8731:Cc2d2a UTSW 5 43,735,446 (GRCm38) missense probably damaging 1.00
R8780:Cc2d2a UTSW 5 43,739,350 (GRCm38) missense probably damaging 1.00
R8784:Cc2d2a UTSW 5 43,703,303 (GRCm38) missense possibly damaging 0.90
R8871:Cc2d2a UTSW 5 43,699,943 (GRCm38) missense possibly damaging 0.71
R8972:Cc2d2a UTSW 5 43,710,542 (GRCm38) missense probably benign
R9122:Cc2d2a UTSW 5 43,673,739 (GRCm38) missense probably null 0.07
R9125:Cc2d2a UTSW 5 43,703,221 (GRCm38) missense probably benign
R9203:Cc2d2a UTSW 5 43,733,837 (GRCm38) missense probably benign 0.01
R9310:Cc2d2a UTSW 5 43,695,146 (GRCm38) missense probably damaging 1.00
R9343:Cc2d2a UTSW 5 43,718,657 (GRCm38) missense probably damaging 1.00
R9353:Cc2d2a UTSW 5 43,703,349 (GRCm38) critical splice donor site probably null
Z1177:Cc2d2a UTSW 5 43,703,204 (GRCm38) missense probably benign
Predicted Primers PCR Primer
(F):5'- CCCAAATGGCAGTTTGAAGG -3'
(R):5'- GGGACCTAAGAAATGTCAGCTTCTAG -3'

Sequencing Primer
(F):5'- CCCAAATGGCAGTTTGAAGGTTGAG -3'
(R):5'- CAGCTTCTAGTTCTCAGTGGACATG -3'
Posted On 2014-06-23