Incidental Mutation 'R3619:Pcdha12'
ID 473076
Institutional Source Beutler Lab
Gene Symbol Pcdha12
Ensembl Gene ENSMUSG00000103310
Gene Name protocadherin alpha 12
Synonyms Cnr5, Pcdha13, Crnr5
MMRRC Submission 040676-MU
Accession Numbers
Essential gene? Probably non essential (E-score: 0.198) question?
Stock # R3619 (G1)
Quality Score 225
Status Not validated
Chromosome 18
Chromosomal Location 37153283-37320710 bp(+) (GRCm39)
Type of Mutation missense
DNA Base Change (assembly) G to A at 37153757 bp (GRCm39)
Zygosity Heterozygous
Amino Acid Change Aspartic acid to Asparagine at position 159 (D159N)
Ref Sequence ENSEMBL: ENSMUSP00000047609 (fasta)
Gene Model predicted gene model for transcript(s): [ENSMUST00000047614] [ENSMUST00000070797] [ENSMUST00000115657] [ENSMUST00000115658] [ENSMUST00000115659] [ENSMUST00000192512] [ENSMUST00000193777] [ENSMUST00000193839] [ENSMUST00000192447] [ENSMUST00000192168] [ENSMUST00000193389] [ENSMUST00000115662] [ENSMUST00000192631] [ENSMUST00000192295] [ENSMUST00000115661] [ENSMUST00000192503] [ENSMUST00000195590] [ENSMUST00000194544] [ENSMUST00000194751] [ENSMUST00000194038]
AlphaFold Q91Y18
Predicted Effect probably damaging
Transcript: ENSMUST00000047614
AA Change: D159N

PolyPhen 2 Score 1.000 (Sensitivity: 0.00; Specificity: 1.00)
SMART Domains Protein: ENSMUSP00000047609
Gene: ENSMUSG00000103310
AA Change: D159N

DomainStartEndE-ValueType
CA 19 131 3.78e-2 SMART
CA 155 240 3.26e-24 SMART
CA 264 348 6.37e-27 SMART
CA 372 453 3.31e-25 SMART
CA 477 563 6.18e-25 SMART
CA 594 676 5.6e-14 SMART
low complexity region 679 696 N/A INTRINSIC
transmembrane domain 699 721 N/A INTRINSIC
Pfam:Cadherin_tail 799 933 5.3e-58 PFAM
Predicted Effect probably benign
Transcript: ENSMUST00000070797
SMART Domains Protein: ENSMUSP00000068828
Gene: ENSMUSG00000103442

DomainStartEndE-ValueType
CA 22 132 3.09e-2 SMART
CA 156 241 6.14e-20 SMART
CA 265 349 3.92e-27 SMART
CA 373 454 4.94e-24 SMART
CA 478 564 1e-24 SMART
CA 592 672 4.55e-14 SMART
transmembrane domain 694 716 N/A INTRINSIC
Pfam:Cadherin_tail 797 931 5.3e-58 PFAM
Predicted Effect noncoding transcript
Transcript: ENSMUST00000097612
Predicted Effect probably benign
Transcript: ENSMUST00000115657
SMART Domains Protein: ENSMUSP00000111321
Gene: ENSMUSG00000102206

DomainStartEndE-ValueType
CA 21 131 2.95e-2 SMART
CA 155 240 7.44e-19 SMART
CA 264 347 5.63e-28 SMART
CA 371 452 3.14e-26 SMART
CA 476 562 1.42e-24 SMART
CA 593 675 1.03e-12 SMART
transmembrane domain 697 719 N/A INTRINSIC
low complexity region 783 794 N/A INTRINSIC
low complexity region 918 942 N/A INTRINSIC
Predicted Effect probably benign
Transcript: ENSMUST00000115658
SMART Domains Protein: ENSMUSP00000111322
Gene: ENSMUSG00000007440

DomainStartEndE-ValueType
low complexity region 15 21 N/A INTRINSIC
CA 46 132 6.34e-2 SMART
CA 156 241 4.65e-20 SMART
CA 265 349 1.25e-25 SMART
CA 373 454 9.22e-24 SMART
CA 478 564 4.3e-24 SMART
CA 595 678 5.07e-12 SMART
low complexity region 706 721 N/A INTRINSIC
Pfam:Cadherin_tail 795 929 5.3e-58 PFAM
Predicted Effect probably benign
Transcript: ENSMUST00000115659
SMART Domains Protein: ENSMUSP00000111323
Gene: ENSMUSG00000103770

DomainStartEndE-ValueType
low complexity region 44 51 N/A INTRINSIC
CA 75 161 2.46e-2 SMART
CA 185 270 8.1e-20 SMART
CA 294 378 1.69e-22 SMART
CA 402 483 1.52e-24 SMART
CA 507 593 5.68e-24 SMART
CA 624 705 6.69e-12 SMART
transmembrane domain 727 749 N/A INTRINSIC
Pfam:Cadherin_tail 828 962 5.6e-58 PFAM
Predicted Effect probably benign
Transcript: ENSMUST00000192512
SMART Domains Protein: ENSMUSP00000141408
Gene: ENSMUSG00000104252

DomainStartEndE-ValueType
CA 20 131 5.3e-2 SMART
CA 155 240 1.51e-19 SMART
CA 264 348 7.6e-25 SMART
CA 372 453 1.42e-24 SMART
CA 477 563 1.42e-24 SMART
CA 594 674 4.12e-12 SMART
low complexity region 706 721 N/A INTRINSIC
low complexity region 915 939 N/A INTRINSIC
Predicted Effect probably benign
Transcript: ENSMUST00000193777
SMART Domains Protein: ENSMUSP00000141587
Gene: ENSMUSG00000103707

DomainStartEndE-ValueType
CA 21 131 5.67e-2 SMART
CA 155 240 4.72e-21 SMART
CA 264 348 1.9e-25 SMART
CA 372 453 3.31e-25 SMART
CA 477 563 1.42e-24 SMART
CA 594 676 5.91e-13 SMART
low complexity region 914 938 N/A INTRINSIC
Predicted Effect probably benign
Transcript: ENSMUST00000193839
SMART Domains Protein: ENSMUSP00000142308
Gene: ENSMUSG00000103442

DomainStartEndE-ValueType
CA 22 132 3.09e-2 SMART
CA 156 241 6.14e-20 SMART
CA 265 349 3.92e-27 SMART
CA 373 454 4.94e-24 SMART
CA 478 564 1e-24 SMART
CA 592 672 4.55e-14 SMART
transmembrane domain 694 716 N/A INTRINSIC
Predicted Effect probably benign
Transcript: ENSMUST00000192447
SMART Domains Protein: ENSMUSP00000142270
Gene: ENSMUSG00000102206

DomainStartEndE-ValueType
CA 21 131 1.5e-4 SMART
CA 155 240 3.6e-21 SMART
CA 264 347 2.8e-30 SMART
CA 371 452 1.5e-28 SMART
CA 476 562 6.8e-27 SMART
CA 593 675 4.9e-15 SMART
transmembrane domain 697 719 N/A INTRINSIC
low complexity region 783 794 N/A INTRINSIC
Predicted Effect probably benign
Transcript: ENSMUST00000192168
SMART Domains Protein: ENSMUSP00000142293
Gene: ENSMUSG00000103092

DomainStartEndE-ValueType
CA 21 131 2.2e-2 SMART
CA 155 240 2.05e-21 SMART
CA 264 348 8.81e-21 SMART
CA 372 453 2.01e-24 SMART
CA 477 563 1.42e-24 SMART
CA 591 673 1.63e-15 SMART
transmembrane domain 693 715 N/A INTRINSIC
low complexity region 902 926 N/A INTRINSIC
Predicted Effect probably benign
Transcript: ENSMUST00000193389
SMART Domains Protein: ENSMUSP00000141459
Gene: ENSMUSG00000103707

DomainStartEndE-ValueType
CA 21 131 5.67e-2 SMART
CA 155 240 4.72e-21 SMART
CA 264 348 1.9e-25 SMART
CA 372 453 3.31e-25 SMART
CA 477 563 1.42e-24 SMART
CA 594 676 5.91e-13 SMART
Predicted Effect probably benign
Transcript: ENSMUST00000115662
SMART Domains Protein: ENSMUSP00000111326
Gene: ENSMUSG00000104148

DomainStartEndE-ValueType
CA 45 131 6.34e-2 SMART
CA 155 240 2.98e-18 SMART
CA 264 348 2.17e-29 SMART
CA 372 453 2.84e-24 SMART
CA 477 563 5.02e-25 SMART
CA 594 675 8.16e-16 SMART
transmembrane domain 695 717 N/A INTRINSIC
low complexity region 916 940 N/A INTRINSIC
Predicted Effect probably benign
Transcript: ENSMUST00000192631
SMART Domains Protein: ENSMUSP00000142156
Gene: ENSMUSG00000104318

DomainStartEndE-ValueType
CA 21 131 2.58e-2 SMART
CA 155 240 4.27e-19 SMART
CA 264 348 1.42e-24 SMART
CA 372 453 9.36e-25 SMART
CA 477 563 1.42e-24 SMART
CA 594 671 4.03e-6 SMART
transmembrane domain 696 718 N/A INTRINSIC
low complexity region 905 929 N/A INTRINSIC
Predicted Effect probably benign
Transcript: ENSMUST00000192295
SMART Domains Protein: ENSMUSP00000142103
Gene: ENSMUSG00000104252

DomainStartEndE-ValueType
CA 20 131 5.3e-2 SMART
CA 155 240 1.51e-19 SMART
CA 264 348 7.6e-25 SMART
CA 372 453 1.42e-24 SMART
CA 477 568 5.38e-1 SMART
Predicted Effect probably benign
Transcript: ENSMUST00000115661
SMART Domains Protein: ENSMUSP00000111325
Gene: ENSMUSG00000103458

DomainStartEndE-ValueType
CA 20 131 5.3e-2 SMART
CA 155 240 1.51e-19 SMART
CA 264 348 7.6e-25 SMART
CA 372 453 1.42e-24 SMART
CA 477 563 1.42e-24 SMART
CA 594 674 4.12e-12 SMART
low complexity region 706 721 N/A INTRINSIC
Pfam:Cadherin_tail 796 930 3.9e-58 PFAM
Predicted Effect probably benign
Transcript: ENSMUST00000192503
SMART Domains Protein: ENSMUSP00000141989
Gene: ENSMUSG00000102312

DomainStartEndE-ValueType
low complexity region 11 17 N/A INTRINSIC
CA 42 128 3.78e-2 SMART
CA 152 237 8.94e-22 SMART
CA 261 345 3.74e-24 SMART
CA 369 450 1.09e-25 SMART
CA 474 560 1.42e-24 SMART
CA 588 670 2.96e-13 SMART
transmembrane domain 692 714 N/A INTRINSIC
low complexity region 910 934 N/A INTRINSIC
Predicted Effect probably benign
Transcript: ENSMUST00000193856
Predicted Effect noncoding transcript
Transcript: ENSMUST00000194691
Predicted Effect probably benign
Transcript: ENSMUST00000195590
SMART Domains Protein: ENSMUSP00000141355
Gene: ENSMUSG00000104148

DomainStartEndE-ValueType
CA 45 131 6.34e-2 SMART
CA 155 240 2.98e-18 SMART
CA 264 348 2.17e-29 SMART
CA 372 453 2.84e-24 SMART
CA 477 563 5.02e-25 SMART
CA 594 675 8.16e-16 SMART
transmembrane domain 695 717 N/A INTRINSIC
Predicted Effect probably benign
Transcript: ENSMUST00000194544
SMART Domains Protein: ENSMUSP00000141847
Gene: ENSMUSG00000102836

DomainStartEndE-ValueType
Blast:CA 18 66 5e-20 BLAST
Predicted Effect probably benign
Transcript: ENSMUST00000193984
Predicted Effect probably benign
Transcript: ENSMUST00000194751
SMART Domains Protein: ENSMUSP00000142285
Gene: ENSMUSG00000103707

DomainStartEndE-ValueType
low complexity region 15 21 N/A INTRINSIC
Pfam:Cadherin_2 29 112 4.5e-32 PFAM
Predicted Effect probably benign
Transcript: ENSMUST00000194038
SMART Domains Protein: ENSMUSP00000142159
Gene: ENSMUSG00000103800

DomainStartEndE-ValueType
CA 20 131 6.34e-2 SMART
CA 155 240 4.27e-19 SMART
CA 264 348 2.04e-25 SMART
CA 372 453 2.84e-24 SMART
CA 477 563 9.88e-24 SMART
CA 594 676 8.62e-15 SMART
transmembrane domain 699 721 N/A INTRINSIC
low complexity region 914 938 N/A INTRINSIC
Coding Region Coverage
  • 1x: 99.1%
  • 3x: 98.5%
  • 10x: 97.3%
  • 20x: 95.1%
Validation Efficiency
MGI Phenotype FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] This gene is a member of the protocadherin alpha gene cluster, one of three related gene clusters tandemly linked on chromosome five that demonstrate an unusual genomic organization similar to that of B-cell and T-cell receptor gene clusters. The alpha gene cluster is composed of 15 cadherin superfamily genes related to the mouse CNR genes and consists of 13 highly similar and 2 more distantly related coding sequences. The tandem array of 15 N-terminal exons, or variable exons, are followed by downstream C-terminal exons, or constant exons, which are shared by all genes in the cluster. The large, uninterrupted N-terminal exons each encode six cadherin ectodomains while the C-terminal exons encode the cytoplasmic domain. These neural cadherin-like cell adhesion proteins are integral plasma membrane proteins that most likely play a critical role in the establishment and function of specific cell-cell connections in the brain. Alternative splicing has been observed and additional variants have been suggested but their full-length nature has yet to be determined. [provided by RefSeq, Jul 2008]
Allele List at MGI
Other mutations in this stock
Total: 33 list
GeneRefVarChr/LocMutationPredicted EffectZygosity
Ccdc82 T A 9: 13,251,931 (GRCm39) D74E probably benign Het
Chmp3 T A 6: 71,554,809 (GRCm39) I168N probably damaging Het
Dazap1 T C 10: 80,121,194 (GRCm39) probably benign Het
Dpp6 T C 5: 27,926,118 (GRCm39) S673P possibly damaging Het
Enpep G C 3: 129,077,807 (GRCm39) S603R possibly damaging Het
Fgf11 T C 11: 69,690,234 (GRCm39) S118G probably benign Het
Foxi3 T C 6: 70,934,047 (GRCm39) L178P probably damaging Het
Gbx1 G T 5: 24,731,111 (GRCm39) P235Q probably benign Het
Gm8267 A T 14: 44,961,513 (GRCm39) M60K possibly damaging Het
Gnmt G A 17: 47,039,963 (GRCm39) R39C possibly damaging Het
Hnrnpab T C 11: 51,493,438 (GRCm39) N257D possibly damaging Het
Klhl31 G T 9: 77,562,758 (GRCm39) A508S probably benign Het
Lrif1 A G 3: 106,639,862 (GRCm39) K316E probably damaging Het
Magi3 A T 3: 103,961,721 (GRCm39) F436I probably damaging Het
Mef2a G A 7: 66,918,075 (GRCm39) S111L probably benign Het
Micu1 T C 10: 59,604,080 (GRCm39) probably null Het
Mpst A G 15: 78,294,322 (GRCm39) E18G probably damaging Het
Npepps G T 11: 97,139,091 (GRCm39) F160L possibly damaging Het
Or10al2 T A 17: 37,983,531 (GRCm39) F206I probably benign Het
Or5p81 A T 7: 108,267,057 (GRCm39) I145F probably benign Het
Orc6 T C 8: 86,026,623 (GRCm39) probably null Het
Palm3 T A 8: 84,755,973 (GRCm39) V495E probably benign Het
Pam A G 1: 97,762,157 (GRCm39) F809L probably damaging Het
Pcdh15 T C 10: 74,479,227 (GRCm39) V708A probably benign Het
Plxna1 C A 6: 89,334,435 (GRCm39) A65S probably damaging Het
Ptprt T C 2: 161,408,077 (GRCm39) Y945C probably damaging Het
Pym1 T G 10: 128,601,073 (GRCm39) V31G probably damaging Het
Stard9 C T 2: 120,529,500 (GRCm39) T1919I possibly damaging Het
Tas1r3 C T 4: 155,945,410 (GRCm39) V604I probably damaging Het
Ttc27 G A 17: 75,058,123 (GRCm39) probably null Het
Wfdc6b A T 2: 164,456,826 (GRCm39) Y46F probably benign Het
Zbtb48 A T 4: 152,110,484 (GRCm39) probably null Het
Zfp385b G A 2: 77,246,233 (GRCm39) P177S probably benign Het
Other mutations in Pcdha12
AlleleSourceChrCoordTypePredicted EffectPPH Score
IGL00817:Pcdha12 APN 18 37,154,986 (GRCm39) missense probably benign 0.00
R2884:Pcdha12 UTSW 18 37,153,757 (GRCm39) missense probably damaging 1.00
R3111:Pcdha12 UTSW 18 37,155,243 (GRCm39) missense probably damaging 0.98
R4605:Pcdha12 UTSW 18 37,154,576 (GRCm39) missense probably damaging 1.00
R4629:Pcdha12 UTSW 18 37,154,926 (GRCm39) missense probably damaging 0.99
R4711:Pcdha12 UTSW 18 37,153,976 (GRCm39) missense probably benign 0.00
R4987:Pcdha12 UTSW 18 37,154,604 (GRCm39) missense probably damaging 1.00
R5489:Pcdha12 UTSW 18 37,155,260 (GRCm39) missense probably benign 0.01
R5568:Pcdha12 UTSW 18 37,153,443 (GRCm39) missense probably damaging 1.00
R5649:Pcdha12 UTSW 18 37,155,468 (GRCm39) missense probably benign 0.01
R6211:Pcdha12 UTSW 18 37,153,374 (GRCm39) missense probably damaging 0.99
R6268:Pcdha12 UTSW 18 37,155,477 (GRCm39) missense possibly damaging 0.94
R6793:Pcdha12 UTSW 18 37,155,234 (GRCm39) missense probably damaging 1.00
R6999:Pcdha12 UTSW 18 37,153,329 (GRCm39) missense probably benign 0.00
R7065:Pcdha12 UTSW 18 37,154,679 (GRCm39) missense probably damaging 1.00
R7192:Pcdha12 UTSW 18 37,153,316 (GRCm39) missense probably benign 0.00
R7411:Pcdha12 UTSW 18 37,154,661 (GRCm39) missense probably damaging 1.00
R7486:Pcdha12 UTSW 18 37,154,610 (GRCm39) missense probably damaging 1.00
R7768:Pcdha12 UTSW 18 37,155,404 (GRCm39) missense probably damaging 1.00
R7857:Pcdha12 UTSW 18 37,155,468 (GRCm39) missense probably benign 0.01
R7940:Pcdha12 UTSW 18 37,153,409 (GRCm39) missense probably damaging 0.99
R8271:Pcdha12 UTSW 18 37,154,953 (GRCm39) missense probably damaging 0.99
R8306:Pcdha12 UTSW 18 37,155,638 (GRCm39) missense probably benign 0.06
R8405:Pcdha12 UTSW 18 37,154,250 (GRCm39) missense possibly damaging 0.94
R8475:Pcdha12 UTSW 18 37,154,136 (GRCm39) missense possibly damaging 0.95
R8715:Pcdha12 UTSW 18 37,153,523 (GRCm39) missense probably damaging 1.00
R8725:Pcdha12 UTSW 18 37,154,736 (GRCm39) missense probably benign 0.01
R9307:Pcdha12 UTSW 18 37,153,874 (GRCm39) missense probably damaging 1.00
R9407:Pcdha12 UTSW 18 37,153,614 (GRCm39) missense probably damaging 0.99
R9450:Pcdha12 UTSW 18 37,153,992 (GRCm39) missense probably damaging 1.00
R9460:Pcdha12 UTSW 18 37,153,574 (GRCm39) missense probably damaging 1.00
R9495:Pcdha12 UTSW 18 37,155,526 (GRCm39) missense probably damaging 1.00
R9514:Pcdha12 UTSW 18 37,155,526 (GRCm39) missense probably damaging 1.00
R9562:Pcdha12 UTSW 18 37,155,284 (GRCm39) missense probably damaging 1.00
R9577:Pcdha12 UTSW 18 37,155,126 (GRCm39) missense probably benign 0.17
R9596:Pcdha12 UTSW 18 37,154,302 (GRCm39) missense probably benign 0.32
R9673:Pcdha12 UTSW 18 37,155,234 (GRCm39) missense possibly damaging 0.72
Predicted Primers
Posted On 2017-04-14