Incidental Mutation 'R2518:Shox2'
ID 254036
Institutional Source Beutler Lab
Gene Symbol Shox2
Ensembl Gene ENSMUSG00000027833
Gene Name SHOX homeobox 2
Synonyms Og12x, Prx3, 6330543G17Rik
MMRRC Submission 040422-MU
Accession Numbers
Essential gene? Essential (E-score: 1.000) question?
Stock # R2518 (G1)
Quality Score 225
Status Not validated
Chromosome 3
Chromosomal Location 66879060-66889104 bp(-) (GRCm39)
Type of Mutation missense
DNA Base Change (assembly) T to C at 66885692 bp (GRCm39)
Zygosity Heterozygous
Amino Acid Change Lysine to Glutamic Acid at position 128 (K128E)
Ref Sequence ENSEMBL: ENSMUSP00000029422 (fasta)
Gene Model predicted gene model for transcript(s): [ENSMUST00000029422] [ENSMUST00000162036] [ENSMUST00000162060] [ENSMUST00000162439] [ENSMUST00000195261]
AlphaFold P70390
Predicted Effect possibly damaging
Transcript: ENSMUST00000029422
AA Change: K128E

PolyPhen 2 Score 0.835 (Sensitivity: 0.84; Specificity: 0.93)
SMART Domains Protein: ENSMUSP00000029422
Gene: ENSMUSG00000027833
AA Change: K128E

DomainStartEndE-ValueType
low complexity region 57 90 N/A INTRINSIC
HOX 140 202 1.8e-28 SMART
low complexity region 258 273 N/A INTRINSIC
Pfam:OAR 310 327 3.3e-10 PFAM
Predicted Effect probably benign
Transcript: ENSMUST00000162036
SMART Domains Protein: ENSMUSP00000125468
Gene: ENSMUSG00000034544

DomainStartEndE-ValueType
low complexity region 3 95 N/A INTRINSIC
low complexity region 98 159 N/A INTRINSIC
coiled coil region 180 233 N/A INTRINSIC
low complexity region 265 278 N/A INTRINSIC
Predicted Effect probably benign
Transcript: ENSMUST00000162060
SMART Domains Protein: ENSMUSP00000125031
Gene: ENSMUSG00000027833

DomainStartEndE-ValueType
HOX 11 73 1.8e-28 SMART
low complexity region 117 132 N/A INTRINSIC
Pfam:OAR 167 187 9.7e-11 PFAM
Predicted Effect unknown
Transcript: ENSMUST00000162098
AA Change: K48E
SMART Domains Protein: ENSMUSP00000123838
Gene: ENSMUSG00000027833
AA Change: K48E

DomainStartEndE-ValueType
low complexity region 1 11 N/A INTRINSIC
HOX 61 123 1.8e-28 SMART
low complexity region 167 182 N/A INTRINSIC
Pfam:OAR 219 236 1e-10 PFAM
Predicted Effect probably benign
Transcript: ENSMUST00000162439
SMART Domains Protein: ENSMUSP00000124924
Gene: ENSMUSG00000027833

DomainStartEndE-ValueType
HOX 11 73 1.8e-28 SMART
low complexity region 117 132 N/A INTRINSIC
Pfam:OAR 167 187 9.7e-11 PFAM
Predicted Effect probably benign
Transcript: ENSMUST00000195261
SMART Domains Protein: ENSMUSP00000141625
Gene: ENSMUSG00000027833

DomainStartEndE-ValueType
HOX 11 73 9e-31 SMART
Coding Region Coverage
  • 1x: 99.2%
  • 3x: 98.6%
  • 10x: 97.2%
  • 20x: 94.7%
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 homeobox family of genes that encode proteins containing a 60-amino acid residue motif that represents a DNA binding domain. Homeobox genes have been characterized extensively as transcriptional regulators involved in pattern formation in both invertebrate and vertebrate species. Several human genetic disorders are caused by aberrations in human homeobox genes. This locus represents a pseudoautosomal homeobox gene that is thought to be responsible for idiopathic short stature, and it is implicated in the short stature phenotype of Turner syndrome patients. This gene is considered to be a candidate gene for Cornelia de Lange syndrome. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jul 2009]
PHENOTYPE: Homozygous null mice display incomplete penetrance of embryonic lethality during organogenesis and incomplete clefting of the anterior part of the palate. [provided by MGI curators]
Allele List at MGI
Other mutations in this stock
Total: 63 list
GeneRefVarChr/LocMutationPredicted EffectZygosity
Adam18 A G 8: 25,127,157 (GRCm39) C480R probably damaging Het
Aftph G T 11: 20,675,797 (GRCm39) T604K probably damaging Het
Bivm T C 1: 44,168,775 (GRCm39) V279A probably damaging Het
C2cd2 G A 16: 97,723,286 (GRCm39) T77I probably benign Het
Ccdc146 T C 5: 21,510,526 (GRCm39) H527R probably benign Het
Cd226 A G 18: 89,225,451 (GRCm39) N116S probably benign Het
Cit A G 5: 116,125,105 (GRCm39) K1612E probably damaging Het
Cmtr1 T A 17: 29,900,954 (GRCm39) Y663* probably null Het
Col3a1 T A 1: 45,376,672 (GRCm39) probably benign Het
Copa A G 1: 171,947,468 (GRCm39) N1095D probably benign Het
Cpne1 G T 2: 155,915,891 (GRCm39) A433E probably damaging Het
Cyfip1 C T 7: 55,578,032 (GRCm39) L1181F probably damaging Het
Dnajc6 T A 4: 101,470,127 (GRCm39) I220N probably damaging Het
Duxbl1 G C 14: 25,988,172 (GRCm39) probably benign Het
Fam135b C T 15: 71,335,760 (GRCm39) R478H probably benign Het
Fam91a1 T A 15: 58,322,449 (GRCm39) S734T possibly damaging Het
Fut10 T G 8: 31,726,495 (GRCm39) S417A probably benign Het
Gm9945 C T 11: 53,371,163 (GRCm39) probably benign Het
Golga4 A G 9: 118,385,680 (GRCm39) E934G probably damaging Het
Gpat2 G A 2: 127,270,211 (GRCm39) V75M probably damaging Het
Hdac5 A G 11: 102,087,962 (GRCm39) V949A probably damaging Het
Hdgfl1 G T 13: 26,953,732 (GRCm39) L114I probably benign Het
Ifi27l2b T A 12: 103,422,083 (GRCm39) M94L unknown Het
Irs2 C A 8: 11,055,352 (GRCm39) A1027S probably benign Het
Itga2 A T 13: 115,017,578 (GRCm39) C111S probably damaging Het
Khdrbs1 T C 4: 129,614,540 (GRCm39) T338A probably benign Het
Klk1 T C 7: 43,870,161 (GRCm39) probably null Het
Kmt2b T C 7: 30,275,493 (GRCm39) N1822S probably benign Het
Lrig3 T C 10: 125,830,310 (GRCm39) I136T probably benign Het
Lyar T A 5: 38,385,276 (GRCm39) D105E probably benign Het
Mat1a T A 14: 40,844,469 (GRCm39) D366E probably benign Het
Mrc2 G A 11: 105,239,257 (GRCm39) probably null Het
Naip1 A T 13: 100,559,727 (GRCm39) D1092E probably benign Het
Neb T A 2: 52,139,523 (GRCm39) K95* probably null Het
Nectin4 A G 1: 171,207,776 (GRCm39) D56G probably benign Het
Nup58 A T 14: 60,470,109 (GRCm39) F334Y probably damaging Het
Or14a256 A T 7: 86,265,395 (GRCm39) F153I probably benign Het
Or9i1 A G 19: 13,839,673 (GRCm39) N172S probably damaging Het
Pde8a C A 7: 80,967,170 (GRCm39) T437K probably benign Het
Ppp1r3a A T 6: 14,719,377 (GRCm39) N512K possibly damaging Het
Pramel12 A G 4: 143,144,473 (GRCm39) Q273R possibly damaging Het
Rad51ap2 A G 12: 11,507,068 (GRCm39) D330G probably damaging Het
Ren1 G A 1: 133,287,862 (GRCm39) A399T probably damaging Het
Rnft2 G T 5: 118,332,670 (GRCm39) probably benign Het
Septin14 A T 5: 129,776,099 (GRCm39) S27T probably benign Het
Shld1 T A 2: 132,592,447 (GRCm39) S165T probably damaging Het
Skint1 T C 4: 111,882,678 (GRCm39) W241R probably benign Het
Slc24a4 T A 12: 102,188,310 (GRCm39) H134Q probably benign Het
Slc25a36 A T 9: 96,961,124 (GRCm39) L165Q possibly damaging Het
Slc35f1 A G 10: 52,949,630 (GRCm39) I240V probably benign Het
Slc66a1 A G 4: 139,029,810 (GRCm39) F74L probably damaging Het
Tab2 G A 10: 7,783,245 (GRCm39) P679L probably damaging Het
Tarbp2 A G 15: 102,426,992 (GRCm39) E3G possibly damaging Het
Tas2r130 A T 6: 131,607,036 (GRCm39) I253K probably damaging Het
Timm44 A C 8: 4,316,588 (GRCm39) C319G probably null Het
Tjap1 A T 17: 46,571,021 (GRCm39) N165K probably damaging Het
Tmem63b A G 17: 45,977,080 (GRCm39) I429T probably benign Het
Trabd2b A T 4: 114,457,100 (GRCm39) D339V probably damaging Het
Tst T C 15: 78,290,033 (GRCm39) M1V probably null Het
Ube4a A T 9: 44,859,435 (GRCm39) N335K probably benign Het
Vps54 C T 11: 21,256,394 (GRCm39) T633M probably benign Het
Zfhx4 C T 3: 5,468,418 (GRCm39) P2859S probably benign Het
Zfp953 A G 13: 67,496,003 (GRCm39) Y13H probably damaging Het
Other mutations in Shox2
AlleleSourceChrCoordTypePredicted EffectPPH Score
IGL00334:Shox2 APN 3 66,888,774 (GRCm39) missense possibly damaging 0.49
IGL00813:Shox2 APN 3 66,882,777 (GRCm39) missense probably damaging 1.00
IGL01534:Shox2 APN 3 66,885,696 (GRCm39) missense probably benign 0.01
IGL01583:Shox2 APN 3 66,881,104 (GRCm39) unclassified probably benign
R0306:Shox2 UTSW 3 66,881,167 (GRCm39) missense probably damaging 0.98
R0374:Shox2 UTSW 3 66,881,184 (GRCm39) missense probably damaging 0.98
R0625:Shox2 UTSW 3 66,888,877 (GRCm39) critical splice donor site probably null
R0774:Shox2 UTSW 3 66,881,144 (GRCm39) missense probably damaging 1.00
R1102:Shox2 UTSW 3 66,885,628 (GRCm39) missense probably damaging 1.00
R1192:Shox2 UTSW 3 66,881,243 (GRCm39) nonsense probably null
R2354:Shox2 UTSW 3 66,888,822 (GRCm39) missense possibly damaging 0.94
R4163:Shox2 UTSW 3 66,881,104 (GRCm39) unclassified probably benign
R4976:Shox2 UTSW 3 66,881,008 (GRCm39) unclassified probably benign
R5423:Shox2 UTSW 3 66,881,087 (GRCm39) unclassified probably benign
R5493:Shox2 UTSW 3 66,888,796 (GRCm39) missense probably damaging 1.00
R6528:Shox2 UTSW 3 66,888,618 (GRCm39) missense probably benign 0.00
RF020:Shox2 UTSW 3 66,881,146 (GRCm39) missense probably damaging 1.00
Predicted Primers PCR Primer
(F):5'- ACTCTGACTTTCAGGACCCAGC -3'
(R):5'- TAGGAGTCTCTAGCCTTCTGG -3'

Sequencing Primer
(F):5'- TCCTCGCAATGGGGGTAC -3'
(R):5'- ACGTGTGGTCCTTCCGTGGT -3'
Posted On 2014-12-04