Incidental Mutation 'R1440:Usp40'
ID 160896
Institutional Source Beutler Lab
Gene Symbol Usp40
Ensembl Gene ENSMUSG00000005501
Gene Name ubiquitin specific peptidase 40
Synonyms B230215L03Rik
MMRRC Submission 039495-MU
Accession Numbers
Essential gene? Non essential (E-score: 0.000) question?
Stock # R1440 (G1)
Quality Score 225
Status Validated
Chromosome 1
Chromosomal Location 87872841-87936273 bp(-) (GRCm39)
Type of Mutation missense
DNA Base Change (assembly) A to G at 87909808 bp (GRCm39)
Zygosity Heterozygous
Amino Acid Change Serine to Proline at position 549 (S549P)
Ref Sequence ENSEMBL: ENSMUSP00000140107 (fasta)
Gene Model predicted gene model for transcript(s): [ENSMUST00000040783] [ENSMUST00000187758] [ENSMUST00000188332]
AlphaFold Q8BWR4
Predicted Effect probably benign
Transcript: ENSMUST00000040783
AA Change: S549P

PolyPhen 2 Score 0.007 (Sensitivity: 0.96; Specificity: 0.75)
SMART Domains Protein: ENSMUSP00000038533
Gene: ENSMUSG00000005501
AA Change: S549P

DomainStartEndE-ValueType
Pfam:UCH 40 344 1.1e-31 PFAM
Pfam:UCH_1 41 320 1.2e-20 PFAM
low complexity region 641 650 N/A INTRINSIC
Predicted Effect noncoding transcript
Transcript: ENSMUST00000186315
Predicted Effect probably benign
Transcript: ENSMUST00000187758
AA Change: S549P

PolyPhen 2 Score 0.007 (Sensitivity: 0.96; Specificity: 0.75)
SMART Domains Protein: ENSMUSP00000140107
Gene: ENSMUSG00000005501
AA Change: S549P

DomainStartEndE-ValueType
Pfam:UCH 40 346 8.7e-41 PFAM
Pfam:UCH_1 41 319 2.4e-22 PFAM
low complexity region 641 650 N/A INTRINSIC
Predicted Effect probably benign
Transcript: ENSMUST00000188332
SMART Domains Protein: ENSMUSP00000140574
Gene: ENSMUSG00000005501

DomainStartEndE-ValueType
Pfam:UCH 40 70 5.9e-6 PFAM
Meta Mutation Damage Score 0.0697 question?
Coding Region Coverage
  • 1x: 98.8%
  • 3x: 97.7%
  • 10x: 94.0%
  • 20x: 84.7%
Validation Efficiency 95% (94/99)
MGI Phenotype FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] Modification of cellular proteins by ubiquitin is an essential regulatory mechanism controlled by the coordinated action of multiple ubiquitin-conjugating and deubiquitinating enzymes. USP40 belongs to a large family of cysteine proteases that function as deubiquitinating enzymes (Quesada et al., 2004 [PubMed 14715245]).[supplied by OMIM, Mar 2008]
Allele List at MGI

All alleles(4) : Targeted, other(2) Gene trapped(2)

Other mutations in this stock
Total: 91 list
GeneRefVarChr/LocMutationPredicted EffectZygosity
4930447C04Rik T G 12: 72,928,195 (GRCm39) N512T possibly damaging Het
Aadacl2 A T 3: 59,932,313 (GRCm39) H276L probably damaging Het
Adam12 G A 7: 133,533,543 (GRCm39) T445M probably benign Het
Ash2l A T 8: 26,317,406 (GRCm39) F290L probably benign Het
Asxl3 C T 18: 22,658,281 (GRCm39) P2097L probably benign Het
Atmin A G 8: 117,684,115 (GRCm39) I592V probably damaging Het
Atxn2 T C 5: 121,941,145 (GRCm39) probably null Het
BC004004 T C 17: 29,515,665 (GRCm39) probably null Het
Cacna1e T C 1: 154,437,552 (GRCm39) N328S possibly damaging Het
Cacna2d1 A T 5: 16,560,493 (GRCm39) K765I probably damaging Het
Cc2d1a A G 8: 84,860,604 (GRCm39) probably null Het
Ccdc28b A G 4: 129,514,408 (GRCm39) V198A probably benign Het
Ces1b G T 8: 93,794,736 (GRCm39) R288S probably damaging Het
Cfap100 T G 6: 90,389,166 (GRCm39) T198P probably benign Het
Clint1 T C 11: 45,781,610 (GRCm39) S227P probably damaging Het
Cntn5 C A 9: 10,145,344 (GRCm39) C122F probably damaging Het
Col3a1 A G 1: 45,382,472 (GRCm39) probably null Het
Cyp4a10 A C 4: 115,386,646 (GRCm39) D431A probably damaging Het
Cyp4f16 CTATG CTATGTATG 17: 32,769,708 (GRCm39) probably null Het
Dlc1 A T 8: 37,060,617 (GRCm39) probably benign Het
Dlgap2 T C 8: 14,777,060 (GRCm39) S102P probably benign Het
Dnah7b G A 1: 46,117,753 (GRCm39) probably benign Het
Dock10 A C 1: 80,526,853 (GRCm39) S1124A probably benign Het
Dscam C T 16: 96,621,151 (GRCm39) R519H probably damaging Het
Efcab3 A T 11: 104,999,581 (GRCm39) probably benign Het
Evi2a G T 11: 79,418,096 (GRCm39) N171K probably damaging Het
Fbxl15 T C 19: 46,318,684 (GRCm39) L286P probably damaging Het
Fpr1 T A 17: 18,097,525 (GRCm39) I155F probably benign Het
Gcat C T 15: 78,918,194 (GRCm39) A84V probably null Het
Gls A G 1: 52,230,293 (GRCm39) F473L possibly damaging Het
Gnat1 T C 9: 107,554,164 (GRCm39) D169G probably damaging Het
Grm3 A C 5: 9,639,958 (GRCm39) M29R probably benign Het
Herc1 A T 9: 66,375,085 (GRCm39) D3303V probably damaging Het
Ibsp G A 5: 104,458,405 (GRCm39) G314D unknown Het
Irag2 C T 6: 145,120,237 (GRCm39) T484M possibly damaging Het
Lgr6 C A 1: 134,915,210 (GRCm39) A513S probably damaging Het
Lrriq4 T A 3: 30,704,910 (GRCm39) C313S probably damaging Het
Marchf10 G T 11: 105,281,409 (GRCm39) T292K probably damaging Het
Mcoln2 C A 3: 145,896,137 (GRCm39) Y6* probably null Het
Mup4 A G 4: 59,958,076 (GRCm39) I164T probably damaging Het
Myo1b T C 1: 51,817,717 (GRCm39) probably benign Het
Ncam1 A G 9: 49,456,100 (GRCm39) I506T probably damaging Het
Notch1 A T 2: 26,370,976 (GRCm39) probably benign Het
Nr4a3 A T 4: 48,051,777 (GRCm39) Q177L probably benign Het
Nsun4 A G 4: 115,910,147 (GRCm39) S138P possibly damaging Het
Or1a1 A G 11: 74,086,505 (GRCm39) M59V probably damaging Het
Or2b6 G T 13: 21,823,560 (GRCm39) N44K probably benign Het
Or2d36 A T 7: 106,747,405 (GRCm39) N294I probably damaging Het
Or4k5 T C 14: 50,385,815 (GRCm39) N172S probably damaging Het
Pagr1a A T 7: 126,615,469 (GRCm39) probably benign Het
Pcdhb2 A T 18: 37,429,343 (GRCm39) I82L probably benign Het
Pds5b A T 5: 150,677,882 (GRCm39) N500I probably damaging Het
Pik3r6 A T 11: 68,422,271 (GRCm39) E223D possibly damaging Het
Pkhd1l1 A T 15: 44,404,384 (GRCm39) probably benign Het
Prex1 T C 2: 166,422,383 (GRCm39) D1204G probably damaging Het
Prickle1 C T 15: 93,402,955 (GRCm39) E244K possibly damaging Het
Ptprd A T 4: 76,002,789 (GRCm39) V211E probably damaging Het
Rad51d G A 11: 82,781,179 (GRCm39) R23* probably null Het
Rapgef6 G A 11: 54,517,534 (GRCm39) G262R probably damaging Het
Reln A G 5: 22,333,600 (GRCm39) probably benign Het
Rev1 T C 1: 38,127,286 (GRCm39) T325A probably damaging Het
Rnd3 T A 2: 51,022,518 (GRCm39) I175L probably benign Het
Rp1 C A 1: 4,417,619 (GRCm39) L1164F probably damaging Het
S100a7a T C 3: 90,562,942 (GRCm39) V43A probably benign Het
Scaper A C 9: 55,510,202 (GRCm39) Y1104* probably null Het
Scn2a T A 2: 65,594,938 (GRCm39) V1929D probably benign Het
Scn3a T C 2: 65,359,785 (GRCm39) N141S possibly damaging Het
Slc12a7 T G 13: 73,949,127 (GRCm39) L718R probably damaging Het
Slc15a2 T C 16: 36,605,005 (GRCm39) probably benign Het
Slc35b3 G A 13: 39,138,110 (GRCm39) Q100* probably null Het
Slc9a5 T A 8: 106,081,785 (GRCm39) V170E possibly damaging Het
Snx5 T G 2: 144,096,731 (GRCm39) K278T possibly damaging Het
Sorbs2 T C 8: 46,243,000 (GRCm39) probably benign Het
Stab1 C T 14: 30,873,647 (GRCm39) W1008* probably null Het
Stab2 C T 10: 86,697,231 (GRCm39) probably null Het
Tacc3 A G 5: 33,825,321 (GRCm39) E377G probably benign Het
Tango6 T C 8: 107,415,671 (GRCm39) L164P probably damaging Het
Tbc1d12 T A 19: 38,902,796 (GRCm39) S570T possibly damaging Het
Thbs1 T C 2: 117,944,836 (GRCm39) F217L probably damaging Het
Tmbim6 T A 15: 99,300,004 (GRCm39) V40E probably damaging Het
Tmigd1 A T 11: 76,800,986 (GRCm39) N158Y probably damaging Het
Top3b C T 16: 16,710,641 (GRCm39) R824* probably null Het
Tram1l1 A T 3: 124,115,580 (GRCm39) K247* probably null Het
Tsc2 T C 17: 24,833,366 (GRCm39) Y686C probably damaging Het
Tsga10 T C 1: 37,858,680 (GRCm39) Q218R probably damaging Het
Uba6 G T 5: 86,288,282 (GRCm39) A439D probably damaging Het
Ubn1 C A 16: 4,895,158 (GRCm39) P735T probably damaging Het
Utp20 T C 10: 88,655,201 (GRCm39) T176A probably benign Het
Utp4 T G 8: 107,624,685 (GRCm39) probably benign Het
Xpo5 C T 17: 46,518,853 (GRCm39) probably benign Het
Zfp979 A T 4: 147,698,493 (GRCm39) I72K possibly damaging Het
Other mutations in Usp40
AlleleSourceChrCoordTypePredicted EffectPPH Score
IGL00264:Usp40 APN 1 87,931,960 (GRCm39) splice site probably benign
IGL00828:Usp40 APN 1 87,906,028 (GRCm39) unclassified probably benign
IGL01090:Usp40 APN 1 87,890,187 (GRCm39) missense probably benign 0.01
IGL01123:Usp40 APN 1 87,913,845 (GRCm39) missense probably benign 0.01
IGL01401:Usp40 APN 1 87,921,920 (GRCm39) missense probably damaging 1.00
IGL02506:Usp40 APN 1 87,909,738 (GRCm39) missense probably damaging 0.98
IGL02580:Usp40 APN 1 87,908,688 (GRCm39) splice site probably null
IGL02625:Usp40 APN 1 87,877,739 (GRCm39) missense probably benign 0.19
IGL02811:Usp40 APN 1 87,923,458 (GRCm39) missense probably damaging 1.00
IGL02958:Usp40 APN 1 87,906,207 (GRCm39) missense probably damaging 0.99
Brink UTSW 1 87,908,755 (GRCm39) missense probably benign 0.11
void UTSW 1 87,923,435 (GRCm39) nonsense probably null
G5030:Usp40 UTSW 1 87,921,941 (GRCm39) missense probably damaging 1.00
R0019:Usp40 UTSW 1 87,906,133 (GRCm39) missense probably benign 0.00
R0282:Usp40 UTSW 1 87,908,680 (GRCm39) splice site probably benign
R0453:Usp40 UTSW 1 87,874,320 (GRCm39) makesense probably null
R0646:Usp40 UTSW 1 87,906,244 (GRCm39) missense probably benign 0.00
R1490:Usp40 UTSW 1 87,916,687 (GRCm39) nonsense probably null
R1620:Usp40 UTSW 1 87,921,947 (GRCm39) missense probably damaging 1.00
R1881:Usp40 UTSW 1 87,921,993 (GRCm39) missense probably benign 0.08
R1903:Usp40 UTSW 1 87,909,778 (GRCm39) missense probably benign 0.15
R1912:Usp40 UTSW 1 87,874,368 (GRCm39) missense probably benign 0.00
R1919:Usp40 UTSW 1 87,923,564 (GRCm39) missense possibly damaging 0.75
R1976:Usp40 UTSW 1 87,906,258 (GRCm39) missense probably benign 0.00
R2111:Usp40 UTSW 1 87,877,936 (GRCm39) missense probably benign 0.17
R2112:Usp40 UTSW 1 87,877,936 (GRCm39) missense probably benign 0.17
R2163:Usp40 UTSW 1 87,923,580 (GRCm39) splice site probably benign
R2432:Usp40 UTSW 1 87,909,804 (GRCm39) missense probably benign
R2865:Usp40 UTSW 1 87,877,701 (GRCm39) nonsense probably null
R3885:Usp40 UTSW 1 87,894,991 (GRCm39) missense probably damaging 1.00
R4360:Usp40 UTSW 1 87,880,083 (GRCm39) missense probably damaging 1.00
R4370:Usp40 UTSW 1 87,925,597 (GRCm39) missense probably benign
R4496:Usp40 UTSW 1 87,923,459 (GRCm39) missense possibly damaging 0.69
R4714:Usp40 UTSW 1 87,894,901 (GRCm39) splice site probably null
R4888:Usp40 UTSW 1 87,913,923 (GRCm39) critical splice acceptor site probably null
R4944:Usp40 UTSW 1 87,880,077 (GRCm39) missense probably benign 0.10
R5269:Usp40 UTSW 1 87,923,504 (GRCm39) missense probably benign 0.01
R5629:Usp40 UTSW 1 87,908,731 (GRCm39) missense probably benign
R5696:Usp40 UTSW 1 87,923,474 (GRCm39) missense probably benign 0.27
R5756:Usp40 UTSW 1 87,879,413 (GRCm39) missense possibly damaging 0.66
R5887:Usp40 UTSW 1 87,927,592 (GRCm39) missense probably damaging 1.00
R5910:Usp40 UTSW 1 87,896,122 (GRCm39) nonsense probably null
R6014:Usp40 UTSW 1 87,907,738 (GRCm39) missense probably damaging 1.00
R6044:Usp40 UTSW 1 87,917,872 (GRCm39) missense probably benign
R6083:Usp40 UTSW 1 87,906,281 (GRCm39) missense probably benign 0.01
R6299:Usp40 UTSW 1 87,925,649 (GRCm39) missense probably damaging 0.99
R6625:Usp40 UTSW 1 87,894,935 (GRCm39) missense probably benign 0.01
R6757:Usp40 UTSW 1 87,907,759 (GRCm39) missense probably damaging 0.99
R6810:Usp40 UTSW 1 87,908,755 (GRCm39) missense probably benign 0.11
R7110:Usp40 UTSW 1 87,913,884 (GRCm39) missense probably benign 0.11
R7573:Usp40 UTSW 1 87,913,794 (GRCm39) missense probably benign 0.09
R7575:Usp40 UTSW 1 87,877,682 (GRCm39) missense probably damaging 1.00
R7634:Usp40 UTSW 1 87,890,152 (GRCm39) nonsense probably null
R7756:Usp40 UTSW 1 87,894,922 (GRCm39) missense probably damaging 0.99
R7767:Usp40 UTSW 1 87,909,900 (GRCm39) missense probably benign 0.01
R7861:Usp40 UTSW 1 87,909,852 (GRCm39) missense probably damaging 0.99
R7881:Usp40 UTSW 1 87,923,435 (GRCm39) nonsense probably null
R7896:Usp40 UTSW 1 87,906,201 (GRCm39) missense possibly damaging 0.77
R8119:Usp40 UTSW 1 87,895,400 (GRCm39) splice site probably null
R8354:Usp40 UTSW 1 87,908,694 (GRCm39) missense probably benign 0.00
R8358:Usp40 UTSW 1 87,908,770 (GRCm39) missense possibly damaging 0.71
R8425:Usp40 UTSW 1 87,887,558 (GRCm39) missense probably benign
R8446:Usp40 UTSW 1 87,906,190 (GRCm39) missense probably benign
R8454:Usp40 UTSW 1 87,908,694 (GRCm39) missense probably benign 0.00
R8744:Usp40 UTSW 1 87,911,491 (GRCm39) missense probably benign
R9002:Usp40 UTSW 1 87,935,063 (GRCm39) missense probably benign
R9033:Usp40 UTSW 1 87,923,499 (GRCm39) utr 3 prime probably benign
R9210:Usp40 UTSW 1 87,885,035 (GRCm39) missense possibly damaging 0.90
R9245:Usp40 UTSW 1 87,878,009 (GRCm39) missense probably benign
R9331:Usp40 UTSW 1 87,901,828 (GRCm39) missense probably damaging 1.00
R9378:Usp40 UTSW 1 87,885,032 (GRCm39) missense probably damaging 1.00
R9379:Usp40 UTSW 1 87,881,889 (GRCm39) missense probably benign
R9501:Usp40 UTSW 1 87,925,557 (GRCm39) missense probably benign 0.01
R9535:Usp40 UTSW 1 87,935,161 (GRCm39) start gained probably benign
R9537:Usp40 UTSW 1 87,935,117 (GRCm39) missense probably benign 0.01
RF006:Usp40 UTSW 1 87,894,917 (GRCm39) missense possibly damaging 0.47
Z1177:Usp40 UTSW 1 87,896,136 (GRCm39) missense probably damaging 1.00
Predicted Primers PCR Primer
(F):5'- TTTGGAATGCCCTCCACAGCTC -3'
(R):5'- ATGGCACAGGTCTCGCTGAATG -3'

Sequencing Primer
(F):5'- AGCTTAGCTCTGCCAGAACTG -3'
(R):5'- tttgtttgtttgtttgtttgGGG -3'
Posted On 2014-03-14