Mutagenetix > Incidental Mutation

Incidental Mutation 'R0784:Senp3'

76783

Institutional Source

Beutler Lab

Gene Symbol

Senp3

Ensembl Gene

ENSMUSG00000005204

Gene Name

SUMO/sentrin specific peptidase 3

Synonyms

Smt3ip1

MMRRC Submission

038964-MU

Accession Numbers

Essential gene?

Possibly essential (E-score: 0.632) question?

Stock #

R0784 (G1)

Quality Score

169

Status

Validated

Chromosome

Chromosomal Location

69563941-69572910 bp(-) (GRCm39)

Type of Mutation

missense

DNA Base Change (assembly)

A to G at 69571274 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Leucine to Proline at position 131 (L131P)

Ref Sequence

ENSEMBL: ENSMUSP00000066581 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000005336] [ENSMUST00000018896] [ENSMUST00000066760] [ENSMUST00000108648] [ENSMUST00000108649] [ENSMUST00000180587] [ENSMUST00000174159]

AlphaFold

Q9EP97

Predicted Effect

probably damaging
Transcript: ENSMUST00000005336
AA Change: L131P

PolyPhen 2 Score 0.988 (Sensitivity: 0.73; Specificity: 0.96)

SMART Domains

Protein: ENSMUSP00000005336
Gene: ENSMUSG00000005204
AA Change: L131P

Domain	Start	End	E-Value	Type
low complexity region	25	40	N/A	INTRINSIC
low complexity region	42	53	N/A	INTRINSIC
low complexity region	74	86	N/A	INTRINSIC
low complexity region	118	131	N/A	INTRINSIC
low complexity region	183	195	N/A	INTRINSIC
Pfam:Peptidase_C48	394	566	4.9e-49	PFAM

Predicted Effect

probably benign
Transcript: ENSMUST00000018896

SMART Domains

Protein: ENSMUSP00000018896
Gene: ENSMUSG00000089669

Domain	Start	End	E-Value	Type
Blast:TNF	39	87	1e-22	BLAST
low complexity region	101	106	N/A	INTRINSIC
TNF	107	240	7.41e-3	SMART

Predicted Effect

probably damaging
Transcript: ENSMUST00000066760
AA Change: L131P

PolyPhen 2 Score 0.988 (Sensitivity: 0.73; Specificity: 0.96)

SMART Domains

Protein: ENSMUSP00000066581
Gene: ENSMUSG00000005204
AA Change: L131P

Domain	Start	End	E-Value	Type
low complexity region	25	40	N/A	INTRINSIC
low complexity region	42	53	N/A	INTRINSIC
low complexity region	74	86	N/A	INTRINSIC
low complexity region	118	131	N/A	INTRINSIC
low complexity region	183	195	N/A	INTRINSIC
Pfam:Peptidase_C48	394	566	4.9e-49	PFAM

Predicted Effect

probably benign
Transcript: ENSMUST00000108648

SMART Domains

Protein: ENSMUSP00000104288
Gene: ENSMUSG00000089669

Domain	Start	End	E-Value	Type
Blast:TNF	39	87	1e-22	BLAST
TNF	97	224	6.21e-2	SMART

Predicted Effect

probably benign
Transcript: ENSMUST00000108649

SMART Domains

Protein: ENSMUSP00000104289
Gene: ENSMUSG00000018752

Domain	Start	End	E-Value	Type
low complexity region	4	14	N/A	INTRINSIC
transmembrane domain	20	42	N/A	INTRINSIC
low complexity region	90	109	N/A	INTRINSIC
PDB:4HT1\|T	110	166	1e-31	PDB
Blast:TNF	117	166	4e-27	BLAST
low complexity region	190	195	N/A	INTRINSIC
TNF	196	329	7.41e-3	SMART

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000128355

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000130440

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000135372

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000145435

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000140371

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000153516

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000144033

Predicted Effect

probably benign
Transcript: ENSMUST00000180587

SMART Domains

Protein: ENSMUSP00000137973
Gene: ENSMUSG00000018752

Domain	Start	End	E-Value	Type
low complexity region	4	14	N/A	INTRINSIC
transmembrane domain	20	42	N/A	INTRINSIC
low complexity region	91	110	N/A	INTRINSIC
TNF	118	256	6.18e-10	SMART
low complexity region	270	275	N/A	INTRINSIC
TNF	276	410	1.91e-2	SMART

Predicted Effect

probably benign
Transcript: ENSMUST00000174159

SMART Domains

Protein: ENSMUSP00000133951
Gene: ENSMUSG00000018752

Domain	Start	End	E-Value	Type
low complexity region	4	14	N/A	INTRINSIC
transmembrane domain	20	42	N/A	INTRINSIC
low complexity region	90	109	N/A	INTRINSIC
TNF	117	255	6.18e-10	SMART
low complexity region	269	274	N/A	INTRINSIC
TNF	275	408	7.41e-3	SMART

Predicted Effect

probably benign
Transcript: ENSMUST00000134942

SMART Domains

Protein: ENSMUSP00000114791
Gene: ENSMUSG00000005204

Domain	Start	End	E-Value	Type
Pfam:Peptidase_C48	5	167	4.1e-37	PFAM

Meta Mutation Damage Score

0.1940

Coding Region Coverage

1x: 99.6%
3x: 98.9%
10x: 96.9%
20x: 92.1%

Validation Efficiency

97% (59/61)

MGI Phenotype

FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] The reversible posttranslational modification of proteins by the addition of small ubiquitin-like SUMO proteins (see SUMO1; MIM 601912) is required for numerous biologic processes. SUMO-specific proteases, such as SENP3, are responsible for the initial processing of SUMO precursors to generate a C-terminal diglycine motif required for the conjugation reaction. They also have isopeptidase activity for the removal of SUMO from high molecular mass SUMO conjugates (Di Bacco et al., 2006 [PubMed 16738315]).[supplied by OMIM, Jun 2009]

Allele List at MGI

Other mutations in this stock

Total: 58 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
Acin1	T	C	14: 54,890,985 (GRCm39)		probably benign	Het
Adamts2	C	T	11: 50,558,830 (GRCm39)	R182W	probably damaging	Het
Ahr	C	T	12: 35,558,141 (GRCm39)	G293D	possibly damaging	Het
Akna	G	T	4: 63,295,125 (GRCm39)	T1028K	probably benign	Het
Akp3	G	A	1: 87,055,593 (GRCm39)	G547R	unknown	Het
Aoc1l3	T	A	6: 48,964,235 (GRCm39)	M81K	possibly damaging	Het
Asic2	T	A	11: 80,784,815 (GRCm39)	M324L	possibly damaging	Het
Atf6	A	G	1: 170,537,516 (GRCm39)	F635L	probably benign	Het
Atp8b2	A	T	3: 89,864,380 (GRCm39)	V195E	probably damaging	Het
Bicd1	T	A	6: 149,414,861 (GRCm39)	C525S	probably damaging	Het
Cbfa2t3	A	G	8: 123,377,226 (GRCm39)		probably benign	Het
Cd46	G	A	1: 194,774,502 (GRCm39)	T11M	possibly damaging	Het
Cecr2	A	G	6: 120,735,110 (GRCm39)	H754R	possibly damaging	Het
Clcn3	G	T	8: 61,382,237 (GRCm39)	D450E	probably benign	Het
Cobl	T	G	11: 12,216,843 (GRCm39)		probably benign	Het
Cyba	T	A	8: 123,154,422 (GRCm39)	T34S	probably benign	Het
Dennd1a	A	G	2: 37,911,426 (GRCm39)	L187P	probably damaging	Het
Dennd4c	A	T	4: 86,763,145 (GRCm39)	Q1817L	probably benign	Het
Drosha	T	C	15: 12,867,764 (GRCm39)		probably benign	Het
Dync1li2	A	G	8: 105,169,130 (GRCm39)	S34P	probably damaging	Het
Emilin2	T	A	17: 71,582,282 (GRCm39)	D148V	possibly damaging	Het
Galnt11	A	G	5: 25,463,907 (GRCm39)	D393G	probably damaging	Het
Gm5435	T	A	12: 82,542,954 (GRCm39)		noncoding transcript	Het
Gpr176	C	T	2: 118,203,533 (GRCm39)	V46M	possibly damaging	Het
Gpr85	T	A	6: 13,836,748 (GRCm39)	H52L	probably benign	Het
Grn	T	C	11: 102,325,328 (GRCm39)	M246T	possibly damaging	Het
Hnrnpul2	T	C	19: 8,802,416 (GRCm39)	F428L	possibly damaging	Het
Hoxa13	G	C	6: 52,236,917 (GRCm39)	N278K	probably damaging	Het
Irx5	A	G	8: 93,087,118 (GRCm39)	D350G	probably benign	Het
Kat2a	C	T	11: 100,601,667 (GRCm39)	M249I	probably benign	Het
Klhl29	T	C	12: 5,131,251 (GRCm39)	Y782C	probably damaging	Het
Kmt2c	A	T	5: 25,515,893 (GRCm39)	F2650Y	probably benign	Het
Lrp2	A	G	2: 69,348,709 (GRCm39)	I754T	probably benign	Het
LTO1	A	T	7: 144,473,014 (GRCm39)	Y108F	probably benign	Het
Mpl	G	A	4: 118,303,603 (GRCm39)	P472S	possibly damaging	Het
Mtnr1b	A	G	9: 15,774,081 (GRCm39)	I326T	probably benign	Het
Myh9	A	G	15: 77,661,209 (GRCm39)		probably benign	Het
Mylk	G	C	16: 34,699,845 (GRCm39)	E403Q	possibly damaging	Het
Myo9a	A	G	9: 59,803,828 (GRCm39)		probably benign	Het
Or2z2	T	A	11: 58,346,131 (GRCm39)	I215F	possibly damaging	Het
Or4ac1-ps1	T	A	2: 88,370,511 (GRCm39)		noncoding transcript	Het
Pcsk5	T	C	19: 17,692,133 (GRCm39)	M184V	probably benign	Het
Piezo2	T	A	18: 63,216,306 (GRCm39)	D1143V	probably damaging	Het
Prr36	G	T	8: 4,263,771 (GRCm39)		probably benign	Het
Rnf220	C	A	4: 117,135,195 (GRCm39)		probably benign	Het
Shc4	A	C	2: 125,499,416 (GRCm39)	W354G	probably benign	Het
Slc6a15	A	G	10: 103,252,661 (GRCm39)		probably benign	Het
Smtnl2	T	C	11: 72,290,763 (GRCm39)	D394G	probably damaging	Het
Sry	G	T	Y: 2,662,731 (GRCm39)	Q310K	unknown	Het
St7l	A	G	3: 104,778,240 (GRCm39)	M126V	probably benign	Het
St8sia3	T	C	18: 64,404,772 (GRCm39)	W350R	probably damaging	Het
Stk35	A	T	2: 129,652,722 (GRCm39)	K408*	probably null	Het
Thsd7b	T	C	1: 129,523,096 (GRCm39)		probably benign	Het
Tmem106b	T	C	6: 13,084,252 (GRCm39)	V252A	probably damaging	Het
Trpm7	A	G	2: 126,687,992 (GRCm39)		probably null	Het
Ttf2	T	C	3: 100,870,026 (GRCm39)	D349G	probably benign	Het
Zfp386	T	A	12: 116,023,540 (GRCm39)	C419*	probably null	Het
Zfp541	A	G	7: 15,816,917 (GRCm39)		probably benign	Het

Other mutations in Senp3

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL00684:Senp3	APN	11	69,564,919 (GRCm39)	missense	possibly damaging	0.50
IGL02227:Senp3	APN	11	69,565,356 (GRCm39)	missense	possibly damaging	0.95
IGL02942:Senp3	APN	11	69,568,815 (GRCm39)	missense	probably benign	0.02
IGL02996:Senp3	APN	11	69,565,086 (GRCm39)	missense	probably damaging	1.00
R2474:Senp3	UTSW	11	69,564,923 (GRCm39)	missense	probably damaging	1.00
R4619:Senp3	UTSW	11	69,567,944 (GRCm39)	missense	probably benign	0.00
R4620:Senp3	UTSW	11	69,567,944 (GRCm39)	missense	probably benign	0.00
R4737:Senp3	UTSW	11	69,569,655 (GRCm39)	nonsense	probably null
R4777:Senp3	UTSW	11	69,569,063 (GRCm39)	missense	probably damaging	1.00
R4824:Senp3	UTSW	11	69,568,821 (GRCm39)	missense	probably benign	0.16
R5513:Senp3	UTSW	11	69,567,965 (GRCm39)	missense	probably benign
R5870:Senp3	UTSW	11	69,569,048 (GRCm39)	splice site	probably null
R7206:Senp3	UTSW	11	69,569,557 (GRCm39)	missense	probably benign	0.08
R7735:Senp3	UTSW	11	69,569,087 (GRCm39)	missense	probably damaging	0.99
R8724:Senp3	UTSW	11	69,564,419 (GRCm39)	missense	probably damaging	0.99
R9228:Senp3	UTSW	11	69,569,085 (GRCm39)	missense	probably damaging	0.96
R9767:Senp3	UTSW	11	69,569,013 (GRCm39)	missense	possibly damaging	0.71

Predicted Primers

PCR Primer
(F):5'- ATTTCCCACCTTACCCGAGTCAGG -3'
(R):5'- TTACTCAAATCCCAGGCGAGAGCG -3'

Sequencing Primer
(F):5'- TCCTCTGCCATGAGAGCAC -3'
(R):5'- TCAGCTAGTgaagaagaggaagag -3'

Posted On

2013-10-16