Mutagenetix > Incidental Mutation

Incidental Mutation 'R5560:Trafd1'

436514

Institutional Source

Beutler Lab

Gene Symbol

Trafd1

Ensembl Gene

ENSMUSG00000042726

Gene Name

TRAF type zinc finger domain containing 1

Synonyms

Fln29, 1110008K06Rik

MMRRC Submission

043117-MU

Accession Numbers

Essential gene?

Non essential (E-score: 0.000) question?

Stock #

R5560 (G1)

Quality Score

225

Status

Not validated

Chromosome

Chromosomal Location

121371725-121385632 bp(-) (GRCm38)

Type of Mutation

missense

DNA Base Change (assembly)

T to C at 121373303 bp (GRCm38)

Zygosity

Heterozygous

Amino Acid Change

Lysine to Arginine at position 484 (K484R)

Ref Sequence

ENSEMBL: ENSMUSP00000113910 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000042312] [ENSMUST00000042614] [ENSMUST00000120784] [ENSMUST00000156158]

AlphaFold

Q3UDK1

Predicted Effect

possibly damaging
Transcript: ENSMUST00000042312
AA Change: K484R

PolyPhen 2 Score 0.675 (Sensitivity: 0.86; Specificity: 0.92)

SMART Domains

Protein: ENSMUSP00000047475
Gene: ENSMUSG00000042726
AA Change: K484R

Domain	Start	End	E-Value	Type
ZnF_C2H2	37	59	1.55e1	SMART
PDB:2D9K\|A	78	137	7e-33	PDB
low complexity region	211	228	N/A	INTRINSIC
ZnF_C2H2	291	316	2.57e2	SMART
internal_repeat_1	364	390	2.73e-6	PROSPERO
low complexity region	534	551	N/A	INTRINSIC
low complexity region	561	573	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000042614

SMART Domains

Protein: ENSMUSP00000048345
Gene: ENSMUSG00000042744

Domain	Start	End	E-Value	Type
low complexity region	224	234	N/A	INTRINSIC
low complexity region	266	282	N/A	INTRINSIC
low complexity region	553	564	N/A	INTRINSIC
low complexity region	725	735	N/A	INTRINSIC
low complexity region	1252	1265	N/A	INTRINSIC
coiled coil region	1372	1398	N/A	INTRINSIC
low complexity region	1551	1562	N/A	INTRINSIC
low complexity region	1725	1741	N/A	INTRINSIC
low complexity region	1892	1904	N/A	INTRINSIC
low complexity region	2656	2666	N/A	INTRINSIC
low complexity region	2857	2872	N/A	INTRINSIC
low complexity region	2901	2917	N/A	INTRINSIC
low complexity region	2921	2933	N/A	INTRINSIC
low complexity region	3232	3246	N/A	INTRINSIC
low complexity region	3275	3335	N/A	INTRINSIC
low complexity region	3441	3448	N/A	INTRINSIC
low complexity region	3473	3506	N/A	INTRINSIC
low complexity region	3512	3533	N/A	INTRINSIC
low complexity region	3540	3554	N/A	INTRINSIC
low complexity region	3794	3822	N/A	INTRINSIC
HECTc	4048	4412	4.78e-11	SMART

Predicted Effect

possibly damaging
Transcript: ENSMUST00000120784
AA Change: K484R

PolyPhen 2 Score 0.675 (Sensitivity: 0.86; Specificity: 0.92)

SMART Domains

Protein: ENSMUSP00000113910
Gene: ENSMUSG00000042726
AA Change: K484R

Domain	Start	End	E-Value	Type
ZnF_C2H2	37	59	1.55e1	SMART
PDB:2D9K\|A	78	137	7e-33	PDB
low complexity region	211	228	N/A	INTRINSIC
ZnF_C2H2	291	316	2.57e2	SMART
internal_repeat_1	364	390	3.07e-6	PROSPERO
low complexity region	531	545	N/A	INTRINSIC
low complexity region	557	569	N/A	INTRINSIC

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000133138

Predicted Effect

probably benign
Transcript: ENSMUST00000156158

SMART Domains

Protein: ENSMUSP00000143426
Gene: ENSMUSG00000042726

Domain	Start	End	E-Value	Type
PDB:2D9K\|A	1	32	3e-15	PDB
low complexity region	106	123	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000202064

Coding Region Coverage

1x: 99.9%
3x: 99.6%
10x: 97.7%
20x: 92.8%

Validation Efficiency

MGI Phenotype

FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] The innate immune system confers host defense against viral and microbial infection, and TRAFD1 is a negative feedback regulator that controls excessive immune responses (Sanada et al., 2008 [PubMed 18849341]).[supplied by OMIM, Dec 2009]
PHENOTYPE: Mice homozygous for a null allele exhibit increased susceptibility to endotoxin shock and decreased susceptibility to viral infection. [provided by MGI curators]

Allele List at MGI

Other mutations in this stock

Total: 81 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
Acyp2	C	T	11: 30,506,354 (GRCm38)	E98K	possibly damaging	Het
Adipor1	T	C	1: 134,426,040 (GRCm38)	W188R	possibly damaging	Het
Agrn	T	C	4: 156,178,497 (GRCm38)	D441G	probably damaging	Het
Ankrd55	T	C	13: 112,383,490 (GRCm38)	S570P	probably benign	Het
Ano9	C	G	7: 141,110,482 (GRCm38)	G80R	probably damaging	Het
Arhgef2	T	A	3: 88,634,437 (GRCm38)	V250E	probably damaging	Het
Atp2b2	T	C	6: 113,774,358 (GRCm38)	D583G	possibly damaging	Het
Bcar3	T	A	3: 122,426,575 (GRCm38)	D40E	possibly damaging	Het
Capn12	A	G	7: 28,882,860 (GRCm38)	D133G	probably benign	Het
Ccna1	A	T	3: 55,048,569 (GRCm38)	Y269N	probably damaging	Het
Cct6b	A	T	11: 82,741,413 (GRCm38)	Y250N	probably damaging	Het
Cep112	A	C	11: 108,437,235 (GRCm38)	K98Q	probably damaging	Het
Chst13	T	C	6: 90,318,269 (GRCm38)	D54G	probably damaging	Het
Clstn2	G	T	9: 97,469,819 (GRCm38)	H518N	possibly damaging	Het
Cntnap1	T	A	11: 101,182,435 (GRCm38)	L581M	probably damaging	Het
Cog3	T	A	14: 75,729,393 (GRCm38)	M446L	probably damaging	Het
D430042O09Rik	T	C	7: 125,854,561 (GRCm38)	V1150A	probably benign	Het
Dennd2c	T	A	3: 103,161,555 (GRCm38)	I756K	probably damaging	Het
Dennd3	T	G	15: 73,532,895 (GRCm38)	L273R	probably damaging	Het
Dhx34	C	A	7: 16,218,541 (GRCm38)	R53L	probably benign	Het
Dnah9	G	A	11: 65,881,740 (GRCm38)	T3722I	probably benign	Het
Dnajb12	GC	G	10: 59,892,752 (GRCm38)		probably null	Het
Dusp6	A	G	10: 99,266,241 (GRCm38)	Y217C	probably damaging	Het
Dyrk1b	G	A	7: 28,184,253 (GRCm38)	R178Q	possibly damaging	Het
Eif4g1	T	A	16: 20,686,895 (GRCm38)	C1009S	probably benign	Het
Fam198a	T	C	9: 121,978,223 (GRCm38)	F478L	possibly damaging	Het
Frmpd1	A	T	4: 45,243,697 (GRCm38)	T57S	probably damaging	Het
Gjc2	A	G	11: 59,177,359 (GRCm38)	V99A	possibly damaging	Het
Gm9955	A	T	18: 24,709,092 (GRCm38)		probably benign	Het
Gpr158	A	G	2: 21,826,290 (GRCm38)	I734V	possibly damaging	Het
Herc1	A	T	9: 66,451,119 (GRCm38)	H2494L	probably benign	Het
Hist1h1c	A	G	13: 23,739,407 (GRCm38)	S187G	probably benign	Het
Hjurp	GT	GTT	1: 88,266,524 (GRCm38)		probably null	Het
Hmgcs1	A	G	13: 119,699,815 (GRCm38)		probably null	Het
Invs	A	T	4: 48,416,084 (GRCm38)	T655S	probably benign	Het
Ipo9	G	A	1: 135,402,245 (GRCm38)	L486F	probably damaging	Het
Kcnj6	A	T	16: 94,832,965 (GRCm38)	L96M	probably benign	Het
Lfng	A	G	5: 140,614,267 (GRCm38)	D354G	possibly damaging	Het
Lgsn	T	C	1: 31,196,872 (GRCm38)	L139P	probably damaging	Het
Madd	C	A	2: 91,163,545 (GRCm38)	V923L	probably damaging	Het
Mfsd7a	A	T	5: 108,448,863 (GRCm38)	M1K	probably null	Het
Mical1	A	T	10: 41,478,965 (GRCm38)	I157F	probably damaging	Het
Mis18bp1	T	C	12: 65,152,816 (GRCm38)	N154S	possibly damaging	Het
Mrps14	A	G	1: 160,195,535 (GRCm38)	K6R	probably benign	Het
Mug1	T	A	6: 121,861,073 (GRCm38)	C421S	probably damaging	Het
Myo18b	A	G	5: 112,868,295 (GRCm38)	I696T	probably damaging	Het
Naf1	T	C	8: 66,883,545 (GRCm38)	Y375H	probably damaging	Het
Nsf	T	A	11: 103,863,255 (GRCm38)	E485V	possibly damaging	Het
Nup188	A	G	2: 30,309,885 (GRCm38)	D307G	probably damaging	Het
Ocel1	C	A	8: 71,372,478 (GRCm38)	P108T	probably damaging	Het
Oip5	A	G	2: 119,613,059 (GRCm38)	S177P	probably damaging	Het
Olfr1436	G	A	19: 12,298,644 (GRCm38)	Q163*	probably null	Het
Olfr365	A	G	2: 37,201,930 (GRCm38)	I230V	probably benign	Het
Olfr51	A	C	11: 51,007,523 (GRCm38)	I184L	possibly damaging	Het
Olfr943	A	C	9: 39,184,184 (GRCm38)	E2A	probably benign	Het
Omg	A	G	11: 79,501,758 (GRCm38)	W425R	possibly damaging	Het
Pikfyve	A	G	1: 65,253,407 (GRCm38)	Y1339C	probably damaging	Het
Polr3e	A	G	7: 120,922,949 (GRCm38)	D6G	possibly damaging	Het
Pou4f3	C	A	18: 42,395,415 (GRCm38)	P141Q	probably benign	Het
Rcsd1	T	A	1: 165,655,501 (GRCm38)	N337I	possibly damaging	Het
Rhoj	C	T	12: 75,391,712 (GRCm38)	P91S	probably damaging	Het
Rnf10	A	G	5: 115,249,998 (GRCm38)	F367S	probably damaging	Het
Rnft1	A	T	11: 86,493,196 (GRCm38)	R307S	probably benign	Het
Ryr3	A	T	2: 112,754,877 (GRCm38)	F2788Y	probably damaging	Het
Scgb1c1	A	G	7: 140,846,224 (GRCm38)	K78E	possibly damaging	Het
Scn5a	G	T	9: 119,560,286 (GRCm38)	A123E	probably damaging	Het
Setd2	T	A	9: 110,549,839 (GRCm38)	Y623*	probably null	Het
Tbl2	C	T	5: 135,157,591 (GRCm38)	Q216*	probably null	Het
Thegl	A	G	5: 77,016,486 (GRCm38)	D112G	possibly damaging	Het
Tnc	A	G	4: 64,008,709 (GRCm38)	I860T	probably damaging	Het
Trank1	T	C	9: 111,390,567 (GRCm38)	V2124A	probably damaging	Het
Trpm4	A	T	7: 45,310,332 (GRCm38)	W713R	probably damaging	Het
Uap1l1	T	C	2: 25,362,676 (GRCm38)	T451A	probably benign	Het
Uba6	A	T	5: 86,131,260 (GRCm38)	C668S	probably damaging	Het
Ubxn11	T	C	4: 134,126,624 (GRCm38)	F441S	probably damaging	Het
Vmn1r22	C	T	6: 57,900,738 (GRCm38)	V85M	probably damaging	Het
Vmn2r72	T	A	7: 85,751,942 (GRCm38)	I90L	probably damaging	Het
Wdr60	T	C	12: 116,218,113 (GRCm38)	S769G	probably damaging	Het
Zfp330	T	C	8: 82,764,956 (GRCm38)	E196G	probably benign	Het
Zfp746	A	G	6: 48,082,174 (GRCm38)	V167A	possibly damaging	Het
Zfp994	T	C	17: 22,201,713 (GRCm38)	E85G	possibly damaging	Het

Other mutations in Trafd1

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL01774:Trafd1	APN	5	121,375,050 (GRCm38)	missense	possibly damaging	0.93
IGL01951:Trafd1	APN	5	121,374,031 (GRCm38)	missense	possibly damaging	0.94
IGL01955:Trafd1	APN	5	121,375,154 (GRCm38)	missense	probably benign	0.00
R1136:Trafd1	UTSW	5	121,373,324 (GRCm38)	missense	possibly damaging	0.94
R1386:Trafd1	UTSW	5	121,379,652 (GRCm38)	missense	probably damaging	1.00
R1599:Trafd1	UTSW	5	121,379,657 (GRCm38)	missense	probably damaging	1.00
R2106:Trafd1	UTSW	5	121,373,211 (GRCm38)	missense	probably benign	0.00
R2989:Trafd1	UTSW	5	121,379,466 (GRCm38)	missense	probably damaging	0.99
R3895:Trafd1	UTSW	5	121,378,741 (GRCm38)	missense	probably benign	0.45
R4419:Trafd1	UTSW	5	121,373,333 (GRCm38)	missense	probably benign	0.00
R4536:Trafd1	UTSW	5	121,379,683 (GRCm38)	critical splice acceptor site	probably null
R4814:Trafd1	UTSW	5	121,374,016 (GRCm38)	missense	probably benign	0.01
R4822:Trafd1	UTSW	5	121,378,498 (GRCm38)	missense	probably damaging	1.00
R4939:Trafd1	UTSW	5	121,375,191 (GRCm38)	missense	probably benign	0.00
R5849:Trafd1	UTSW	5	121,373,471 (GRCm38)	missense	probably damaging	1.00
R5980:Trafd1	UTSW	5	121,373,457 (GRCm38)	missense	probably damaging	0.99
R5982:Trafd1	UTSW	5	121,373,279 (GRCm38)	missense	probably damaging	1.00
R6919:Trafd1	UTSW	5	121,384,074 (GRCm38)	nonsense	probably null
R8128:Trafd1	UTSW	5	121,372,402 (GRCm38)	missense	possibly damaging	0.89
R8265:Trafd1	UTSW	5	121,373,277 (GRCm38)	missense	possibly damaging	0.95
R8756:Trafd1	UTSW	5	121,375,815 (GRCm38)	missense	probably damaging	1.00
R9046:Trafd1	UTSW	5	121,375,126 (GRCm38)	missense	probably benign
R9130:Trafd1	UTSW	5	121,378,510 (GRCm38)	missense	probably benign	0.01
R9173:Trafd1	UTSW	5	121,378,535 (GRCm38)	missense	possibly damaging	0.78
R9513:Trafd1	UTSW	5	121,378,774 (GRCm38)	missense	possibly damaging	0.89
R9699:Trafd1	UTSW	5	121,379,664 (GRCm38)	missense	probably benign	0.03
Z1176:Trafd1	UTSW	5	121,377,870 (GRCm38)	missense	probably damaging	1.00

Predicted Primers

PCR Primer
(F):5'- CCGCATTATTCTGCATGTGTG -3'
(R):5'- AGACCTGTCATCTGGTTACATGG -3'

Sequencing Primer
(F):5'- GTTTCTGAAGATCAAACTCAGGCC -3'
(R):5'- TTACATGGATGATGTCAAGCCG -3'

Posted On

2016-10-24