Mutagenetix > Incidental Mutation

Incidental Mutation 'R3973:Setd3'

312954

Institutional Source

Beutler Lab

Gene Symbol

Setd3

Ensembl Gene

ENSMUSG00000056770

Gene Name

SET domain containing 3

Synonyms

D12Ertd771e, 2610102I01Rik, 2610305M23Rik

MMRRC Submission

040841-MU

Accession Numbers

Essential gene?

Non essential (E-score: 0.000) question?

Stock #

R3973 (G1)

Quality Score

225

Status

Validated

Chromosome

Chromosomal Location

108072690-108145573 bp(-) (GRCm39)

Type of Mutation

missense

DNA Base Change (assembly)

T to C at 108131417 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Lysine to Arginine at position 3 (K3R)

Ref Sequence

ENSEMBL: ENSMUSP00000066413 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000071095] [ENSMUST00000109879] [ENSMUST00000125916] [ENSMUST00000132682] [ENSMUST00000147466]

AlphaFold

Q91WC0

Predicted Effect

possibly damaging
Transcript: ENSMUST00000071095
AA Change: K3R

PolyPhen 2 Score 0.931 (Sensitivity: 0.81; Specificity: 0.94)

SMART Domains

Protein: ENSMUSP00000066413
Gene: ENSMUSG00000056770
AA Change: K3R

Domain	Start	End	E-Value	Type
Pfam:SET	105	314	2.1e-12	PFAM
Pfam:Rubis-subs-bind	345	475	3.7e-31	PFAM
low complexity region	565	577	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000109879
AA Change: K3R

PolyPhen 2 Score 0.147 (Sensitivity: 0.92; Specificity: 0.87)

SMART Domains

Protein: ENSMUSP00000105505
Gene: ENSMUSG00000056770
AA Change: K3R

Domain	Start	End	E-Value	Type
Pfam:SET	105	287	6.5e-9	PFAM

Predicted Effect

probably benign
Transcript: ENSMUST00000125916
AA Change: K10R

PolyPhen 2 Score 0.123 (Sensitivity: 0.93; Specificity: 0.86)

SMART Domains

Protein: ENSMUSP00000122520
Gene: ENSMUSG00000056770
AA Change: K10R

Domain	Start	End	E-Value	Type
PDB:3SMT\|A	9	155	1e-100	PDB
Blast:SET	101	155	5e-32	BLAST

Predicted Effect

probably benign
Transcript: ENSMUST00000132682
AA Change: K3R

PolyPhen 2 Score 0.035 (Sensitivity: 0.94; Specificity: 0.82)

SMART Domains

Protein: ENSMUSP00000123159
Gene: ENSMUSG00000056770
AA Change: K3R

Domain	Start	End	E-Value	Type
PDB:3SMT\|A	2	58	3e-30	PDB
SCOP:d1epua_	50	79	6e-3	SMART

Predicted Effect

probably benign
Transcript: ENSMUST00000147466
AA Change: K3R

PolyPhen 2 Score 0.035 (Sensitivity: 0.94; Specificity: 0.82)

SMART Domains

Protein: ENSMUSP00000121406
Gene: ENSMUSG00000056770
AA Change: K3R

Domain	Start	End	E-Value	Type
PDB:3SMT\|A	2	58	3e-30	PDB
SCOP:d1epua_	50	79	6e-3	SMART

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000169951

Meta Mutation Damage Score

0.0761

Coding Region Coverage

1x: 99.1%
3x: 98.4%
10x: 96.8%
20x: 93.3%

Validation Efficiency

98% (61/62)

Allele List at MGI

Other mutations in this stock

Total: 58 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
2510039O18Rik	T	C	4: 148,029,488 (GRCm39)	I486T	probably damaging	Het
4933427D14Rik	T	C	11: 72,089,567 (GRCm39)	R106G	probably damaging	Het
Cfap54	A	G	10: 92,675,333 (GRCm39)	S2863P	possibly damaging	Het
Copa	T	A	1: 171,948,812 (GRCm39)	S1155T	probably benign	Het
Crot	T	C	5: 9,027,541 (GRCm39)	T264A	probably benign	Het
Ddx3y	G	A	Y: 1,267,170 (GRCm39)	A232V	probably damaging	Het
Dst	T	G	1: 34,050,979 (GRCm39)	V25G	probably benign	Het
Ehbp1	C	T	11: 22,087,867 (GRCm39)	A406T	probably benign	Het
Eml5	A	T	12: 98,768,724 (GRCm39)		probably benign	Het
Eps8	A	T	6: 137,486,153 (GRCm39)	M453K	probably benign	Het
Galnt3	T	C	2: 65,937,374 (GRCm39)	D112G	possibly damaging	Het
Glra4	C	T	X: 135,663,542 (GRCm39)	A336T	probably damaging	Het
Gmppb	A	G	9: 107,927,338 (GRCm39)	D95G	probably benign	Het
Gprc6a	T	C	10: 51,504,544 (GRCm39)	Y100C	possibly damaging	Het
Gpx6	C	A	13: 21,501,828 (GRCm39)	S150Y	probably damaging	Het
Hsd17b3	A	T	13: 64,207,300 (GRCm39)	V247D	probably damaging	Het
Htr7	T	C	19: 36,034,160 (GRCm39)	D165G	probably damaging	Het
Igha	T	C	12: 113,219,972 (GRCm39)		probably benign	Het
Igsf10	A	G	3: 59,239,345 (GRCm39)	C279R	probably damaging	Het
Irak4	A	G	15: 94,452,621 (GRCm39)	E182G	possibly damaging	Het
Lipo3	A	T	19: 33,535,723 (GRCm39)	V274E	probably damaging	Het
Lrpprc	A	C	17: 85,078,269 (GRCm39)		probably null	Het
Mast1	T	C	8: 85,645,393 (GRCm39)	Y684C	probably damaging	Het
Mdn1	T	C	4: 32,722,363 (GRCm39)	F2382L	probably benign	Het
Mepe	C	T	5: 104,484,944 (GRCm39)	P28L	probably benign	Het
Mrgpra3	T	A	7: 47,239,414 (GRCm39)	I171F	probably benign	Het
Muc2	T	A	7: 141,300,541 (GRCm39)		probably benign	Het
Myh3	C	T	11: 66,987,262 (GRCm39)	Q1371*	probably null	Het
Nodal	T	A	10: 61,258,833 (GRCm39)	V90E	probably benign	Het
Npas4	A	T	19: 5,036,579 (GRCm39)	H528Q	probably benign	Het
Nt5dc3	T	C	10: 86,660,100 (GRCm39)	V382A	probably damaging	Het
Pcdh18	G	A	3: 49,709,035 (GRCm39)	T293I	probably damaging	Het
Phf20l1	A	G	15: 66,513,665 (GRCm39)	D947G	probably damaging	Het
Phf8-ps	A	T	17: 33,285,405 (GRCm39)	S466T	probably benign	Het
Pla2r1	A	G	2: 60,279,306 (GRCm39)	V758A	probably benign	Het
Plod2	G	T	9: 92,480,672 (GRCm39)	G422*	probably null	Het
Ppp1r12a	T	C	10: 108,089,341 (GRCm39)	V660A	probably benign	Het
Prdm6	T	C	18: 53,673,278 (GRCm39)	I186T	possibly damaging	Het
Prkd3	G	A	17: 79,266,570 (GRCm39)		probably benign	Het
Prrc2a	A	G	17: 35,376,908 (GRCm39)	L734P	probably damaging	Het
Rnf128	C	A	X: 138,565,271 (GRCm39)	L282I	probably damaging	Het
Rnf213	A	G	11: 119,359,879 (GRCm39)	N4424S		Het
Scrn3	T	C	2: 73,166,121 (GRCm39)	S385P	possibly damaging	Het
Serpina1d	A	T	12: 103,734,107 (GRCm39)	S66T	probably benign	Het
Slc2a7	A	G	4: 150,242,667 (GRCm39)		probably null	Het
Smad4	G	T	18: 73,810,807 (GRCm39)	T59K	possibly damaging	Het
Spc25	A	G	2: 69,032,945 (GRCm39)	L60P	probably damaging	Het
Stam	A	C	2: 14,143,772 (GRCm39)	H354P	probably damaging	Het
Tesk1	C	T	4: 43,445,786 (GRCm39)	P280S	possibly damaging	Het
Tmem120a	C	G	5: 135,765,131 (GRCm39)	R254P	probably benign	Het
Traf5	T	C	1: 191,729,837 (GRCm39)	T405A	probably benign	Het
Trav7-4	A	G	14: 53,699,119 (GRCm39)	S89G	probably benign	Het
Tsc22d1	T	C	14: 76,656,049 (GRCm39)	S761P	probably damaging	Het
Ugt1a10	C	A	1: 88,143,862 (GRCm39)	H361N	probably damaging	Het
Ugt2b1	C	A	5: 87,065,534 (GRCm39)	V502L	probably benign	Het
Vip	T	A	10: 5,592,590 (GRCm39)	S77T	possibly damaging	Het
Wdr72	A	T	9: 74,125,979 (GRCm39)	M1025L	probably benign	Het
Zfp541	A	G	7: 15,806,147 (GRCm39)	D94G	probably damaging	Het

Other mutations in Setd3

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL00971:Setd3	APN	12	108,126,496 (GRCm39)	missense	probably damaging	1.00
IGL01365:Setd3	APN	12	108,124,165 (GRCm39)	missense	probably damaging	1.00
IGL02031:Setd3	APN	12	108,129,289 (GRCm39)	missense	probably damaging	1.00
IGL02826:Setd3	APN	12	108,078,383 (GRCm39)	unclassified	probably benign
IGL02878:Setd3	APN	12	108,074,814 (GRCm39)	critical splice donor site	probably null
IGL03039:Setd3	APN	12	108,129,229 (GRCm39)	splice site	probably null
R0332:Setd3	UTSW	12	108,073,838 (GRCm39)	missense	probably benign
R1644:Setd3	UTSW	12	108,079,603 (GRCm39)	missense	possibly damaging	0.88
R1776:Setd3	UTSW	12	108,131,420 (GRCm39)	missense	probably damaging	1.00
R2018:Setd3	UTSW	12	108,084,513 (GRCm39)	missense	probably damaging	1.00
R2025:Setd3	UTSW	12	108,126,526 (GRCm39)	missense	probably damaging	1.00
R2041:Setd3	UTSW	12	108,079,651 (GRCm39)	missense	possibly damaging	0.84
R2058:Setd3	UTSW	12	108,073,600 (GRCm39)	missense	probably benign	0.03
R2206:Setd3	UTSW	12	108,073,544 (GRCm39)	missense	probably benign	0.11
R2207:Setd3	UTSW	12	108,073,544 (GRCm39)	missense	probably benign	0.11
R3976:Setd3	UTSW	12	108,131,417 (GRCm39)	missense	possibly damaging	0.93
R3978:Setd3	UTSW	12	108,124,201 (GRCm39)	missense	possibly damaging	0.63
R4684:Setd3	UTSW	12	108,074,949 (GRCm39)	missense	probably benign	0.05
R4965:Setd3	UTSW	12	108,079,630 (GRCm39)	missense	probably benign	0.29
R5691:Setd3	UTSW	12	108,126,544 (GRCm39)	missense	probably benign	0.19
R5990:Setd3	UTSW	12	108,126,594 (GRCm39)	missense	probably benign
R6198:Setd3	UTSW	12	108,131,427 (GRCm39)	missense	possibly damaging	0.66
R6241:Setd3	UTSW	12	108,124,114 (GRCm39)	missense	probably benign	0.24
R6428:Setd3	UTSW	12	108,079,597 (GRCm39)	missense	probably damaging	0.99
R7652:Setd3	UTSW	12	108,078,548 (GRCm39)	missense	probably damaging	1.00
R7913:Setd3	UTSW	12	108,073,924 (GRCm39)	missense	probably benign	0.37
R8221:Setd3	UTSW	12	108,073,612 (GRCm39)	missense	possibly damaging	0.91
R9585:Setd3	UTSW	12	108,074,814 (GRCm39)	critical splice donor site	probably null
X0052:Setd3	UTSW	12	108,073,924 (GRCm39)	missense	probably benign	0.37

Predicted Primers

PCR Primer
(F):5'- TAAACCCCTGCAGAGGAGTG -3'
(R):5'- GAGAAGGCGTGCACTTTGTC -3'

Sequencing Primer
(F):5'- GAGTGAAAGGCATGCCACCC -3'
(R):5'- CTGAGACTGCTGTGCATGC -3'

Posted On

2015-04-30