Incidental Mutation 'R7756:Cdyl'
ID 597568
Institutional Source Beutler Lab
Gene Symbol Cdyl
Ensembl Gene ENSMUSG00000059288
Gene Name chromodomain protein, Y chromosome-like
Synonyms
MMRRC Submission 045812-MU
Accession Numbers
Essential gene? Possibly essential (E-score: 0.577) question?
Stock # R7756 (G1)
Quality Score 225.009
Status Validated
Chromosome 13
Chromosomal Location 35843816-36058046 bp(+) (GRCm39)
Type of Mutation missense
DNA Base Change (assembly) T to A at 36056624 bp (GRCm39)
Zygosity Heterozygous
Amino Acid Change Tyrosine to Asparagine at position 585 (Y585N)
Ref Sequence ENSEMBL: ENSMUSP00000074707 (fasta)
Gene Model predicted gene model for transcript(s): [ENSMUST00000075220] [ENSMUST00000163595]
AlphaFold Q9WTK2
Predicted Effect probably damaging
Transcript: ENSMUST00000075220
AA Change: Y585N

PolyPhen 2 Score 0.998 (Sensitivity: 0.27; Specificity: 0.99)
SMART Domains Protein: ENSMUSP00000074707
Gene: ENSMUSG00000059288
AA Change: Y585N

DomainStartEndE-ValueType
CHROMO 55 109 2.06e-18 SMART
low complexity region 116 129 N/A INTRINSIC
Pfam:ECH_1 342 593 1.8e-35 PFAM
Pfam:ECH_2 348 592 6e-17 PFAM
Predicted Effect probably damaging
Transcript: ENSMUST00000163595
AA Change: Y536N

PolyPhen 2 Score 0.992 (Sensitivity: 0.70; Specificity: 0.97)
SMART Domains Protein: ENSMUSP00000131784
Gene: ENSMUSG00000059288
AA Change: Y536N

DomainStartEndE-ValueType
CHROMO 6 60 1.58e-19 SMART
low complexity region 67 80 N/A INTRINSIC
Pfam:ECH 291 539 4e-38 PFAM
Meta Mutation Damage Score 0.9536 question?
Coding Region Coverage
  • 1x: 100.0%
  • 3x: 100.0%
  • 10x: 99.8%
  • 20x: 99.3%
Validation Efficiency 98% (48/49)
MGI Phenotype FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] Chromodomain Y is a primate-specific Y-chromosomal gene family expressed exclusively in the testis and implicated in infertility. Although the Y-linked genes are testis-specific, this autosomal gene is ubiquitously expressed. The Y-linked genes arose by retrotransposition of an mRNA from this gene, followed by amplification of the retroposed gene. Proteins encoded by this gene superfamily possess a chromodomain, a motif implicated in chromatin binding and gene suppression, and a catalytic domain believed to be involved in histone acetylation. Multiple proteins are encoded by transcript variants of this gene. [provided by RefSeq, Jul 2008]
PHENOTYPE: Conditional homozygous knockout in the cerebral cortex affects neuronal migration and results in increased susceptibility to pharmacologically induced seizures. [provided by MGI curators]
Allele List at MGI
Other mutations in this stock
Total: 49 list
GeneRefVarChr/LocMutationPredicted EffectZygosity
Ankrd60 T C 2: 173,410,562 (GRCm39) *319W probably null Het
Bpnt2 A T 4: 4,769,385 (GRCm39) H243Q probably damaging Het
Brd4 A G 17: 32,417,956 (GRCm39) I1157T unknown Het
Btbd2 T C 10: 80,484,440 (GRCm39) I159V probably benign Het
Card6 G A 15: 5,129,378 (GRCm39) Q673* probably null Het
Cep192 A C 18: 67,989,384 (GRCm39) I1844L possibly damaging Het
Cfap99 G T 5: 34,459,952 (GRCm39) C105F probably damaging Het
Clcn6 T C 4: 148,113,896 (GRCm39) D54G probably damaging Het
Dennd5a T C 7: 109,520,714 (GRCm39) N381S possibly damaging Het
Disp1 A C 1: 182,871,298 (GRCm39) V374G probably damaging Het
Dock4 C T 12: 40,760,878 (GRCm39) T522I probably benign Het
Fcer1a A G 1: 173,049,142 (GRCm39) L223P probably damaging Het
Fstl4 C A 11: 53,059,123 (GRCm39) D527E possibly damaging Het
Gm21886 ACTCACTGAGGCCTGCAGACAGTAGGTGCTCACTGAGGCCTGCAGACAGTAGGTGCTCACTGAGGCCTGCAGACAGTAGGTGCTCACTGAGACCTGCAGACAGTAGGTGCTCACTGAGACCTGCAGACAGTAGGTGCTCACTGAGG ACTCACTGAGGCCTGCAGACAGTAGGTGCTCACTGAGGCCTGCAGACAGTAGGTGCTCACTGAGACCTGCAGACAGTAGGTGCTCACTGAGACCTGCAGACAGTAGGTGCTCACTGAGG 18: 80,133,040 (GRCm39) probably benign Het
Gm5460 A T 14: 33,757,114 (GRCm39) T64S probably benign Het
Gys1 T C 7: 45,097,726 (GRCm39) V491A probably benign Het
Hoxa9 A T 6: 52,202,542 (GRCm39) N181K probably benign Het
Ift81 A T 5: 122,689,088 (GRCm39) L676H probably damaging Het
Inava A G 1: 136,144,171 (GRCm39) S422P probably benign Het
Itga1 T A 13: 115,128,996 (GRCm39) D554V probably benign Het
Lin7c T A 2: 109,726,717 (GRCm39) I122K probably damaging Het
Malt1 A G 18: 65,606,190 (GRCm39) I622V probably benign Het
Megf8 T C 7: 25,041,850 (GRCm39) probably null Het
Morc2b A G 17: 33,355,981 (GRCm39) V597A probably damaging Het
Nr1h5 T C 3: 102,856,925 (GRCm39) I196V probably benign Het
Or10d4 T C 9: 39,580,371 (GRCm39) M6T probably benign Het
Or2a20 T A 6: 43,193,950 (GRCm39) Y34* probably null Het
Or8g2 T G 9: 39,821,621 (GRCm39) I174S possibly damaging Het
Pdlim1 G A 19: 40,231,986 (GRCm39) P131S probably benign Het
Plekhh1 T C 12: 79,117,578 (GRCm39) I858T probably benign Het
Pls1 T C 9: 95,658,897 (GRCm39) N197S probably benign Het
Pnma8a A T 7: 16,695,224 (GRCm39) T360S probably benign Het
Pon1 A T 6: 5,168,344 (GRCm39) D354E probably benign Het
Rbp3 G A 14: 33,676,732 (GRCm39) V227M probably benign Het
Shcbp1 T C 8: 4,794,545 (GRCm39) K416R probably damaging Het
Slc20a2 T G 8: 23,025,508 (GRCm39) I70S probably damaging Het
Slc7a11 A G 3: 50,326,809 (GRCm39) I484T probably benign Het
Snrpa A G 7: 26,892,371 (GRCm39) V63A possibly damaging Het
Stat2 CGCTGGAGCCAGCCCCACAAGTCCTGCTGGAGCCAGCCCCACAAGTCCTGCTGGAGCCAGCCCCACAAGTCCTGCTGGAGCCAGCCCCACAAGTCCTGCTGGAGCCAGCCCCACAAGTCCAGCTGGAGCCAGCCCCACAAGTCCTGCTGGAGCTAGCCCCACAAGTCCTGCTGGAGCCAGCCCCACAAGTCCTGCTGGAGCTAGCCCCACAAGTCCAGCTGGAGCCAGC CGCTGGAGCCAGCCCCACAAGTCCTGCTGGAGCCAGCCCCACAAGTCCTGCTGGAGCCAGCCCCACAAGTCCTGCTGGAGCCAGCCCCACAAGTCCAGCTGGAGCCAGCCCCACAAGTCCTGCTGGAGCTAGCCCCACAAGTCCTGCTGGAGCCAGCCCCACAAGTCCTGCTGGAGCTAGCCCCACAAGTCCAGCTGGAGCCAGC 10: 128,126,597 (GRCm39) probably benign Het
Strc T C 2: 121,201,427 (GRCm39) E1259G probably benign Het
Suds3 T G 5: 117,253,802 (GRCm39) D26A unknown Het
Tnrc18 A G 5: 142,772,907 (GRCm39) S641P Het
Tspan32 A G 7: 142,570,959 (GRCm39) N189D probably benign Het
Unc13b CGAGCCAGAGCCAGAGCCAGAGCCAGAGCCAGAGCCAGAGCCAGAGCCAGAGCCAGAGCCAGAGCCAGAGCCAGAGCCAGAGCCAGAGC CGAGCCAGAGCCAGAGCCAGAGCCAGAGCCAGAGCCAGAGCCAGAGCCAGAGCCAGAGCCAGAGCCAGAGCCAGAGCCAGAGC 4: 43,177,312 (GRCm39) probably benign Het
Usp40 G T 1: 87,894,922 (GRCm39) T866K probably damaging Het
Vmn1r220 G A 13: 23,367,877 (GRCm39) T273I probably benign Het
Yes1 C T 5: 32,842,024 (GRCm39) T516I probably damaging Het
Zbtb4 A G 11: 69,669,368 (GRCm39) E697G probably benign Het
Zfp994 T C 17: 22,419,828 (GRCm39) T374A possibly damaging Het
Other mutations in Cdyl
AlleleSourceChrCoordTypePredicted EffectPPH Score
IGL00981:Cdyl APN 13 36,000,096 (GRCm39) missense probably damaging 0.98
IGL01547:Cdyl APN 13 35,974,145 (GRCm39) missense possibly damaging 0.90
IGL01911:Cdyl APN 13 36,047,226 (GRCm39) missense probably damaging 0.97
IGL02584:Cdyl APN 13 35,867,769 (GRCm39) missense probably benign
IGL02754:Cdyl APN 13 35,867,725 (GRCm39) splice site probably benign
R1630:Cdyl UTSW 13 35,867,786 (GRCm39) missense possibly damaging 0.66
R1678:Cdyl UTSW 13 36,040,872 (GRCm39) missense probably damaging 0.99
R1802:Cdyl UTSW 13 36,056,619 (GRCm39) nonsense probably null
R4435:Cdyl UTSW 13 36,042,233 (GRCm39) critical splice donor site probably null
R5841:Cdyl UTSW 13 36,056,544 (GRCm39) missense probably damaging 1.00
R5860:Cdyl UTSW 13 36,042,066 (GRCm39) missense possibly damaging 0.73
R6430:Cdyl UTSW 13 36,055,589 (GRCm39) missense possibly damaging 0.74
R7127:Cdyl UTSW 13 36,040,651 (GRCm39) missense probably benign 0.01
R7296:Cdyl UTSW 13 36,047,378 (GRCm39) missense probably damaging 1.00
R7369:Cdyl UTSW 13 35,999,992 (GRCm39) missense probably damaging 1.00
R7422:Cdyl UTSW 13 36,042,177 (GRCm39) missense possibly damaging 0.90
R7635:Cdyl UTSW 13 36,055,634 (GRCm39) missense probably damaging 1.00
R7758:Cdyl UTSW 13 36,056,624 (GRCm39) missense probably damaging 1.00
R7764:Cdyl UTSW 13 36,000,126 (GRCm39) missense possibly damaging 0.92
R8221:Cdyl UTSW 13 36,000,147 (GRCm39) missense probably benign 0.00
R8820:Cdyl UTSW 13 36,042,174 (GRCm39) missense probably damaging 1.00
R9277:Cdyl UTSW 13 36,042,222 (GRCm39) missense probably benign
R9550:Cdyl UTSW 13 36,000,147 (GRCm39) missense probably benign 0.00
Z1176:Cdyl UTSW 13 35,999,949 (GRCm39) missense probably damaging 1.00
Z1177:Cdyl UTSW 13 36,000,053 (GRCm39) missense probably benign 0.21
Predicted Primers PCR Primer
(F):5'- TAGTGCCTATAGACAGCCGTCC -3'
(R):5'- TTCCAAGAGCAGCCTAGTGC -3'

Sequencing Primer
(F):5'- TATAGACAGCCGTCCCCTGAC -3'
(R):5'- TAAAGACGCTTAGACAAAGAAGC -3'
Posted On 2019-11-26