Mutagenetix > Incidental Mutation

Incidental Mutation 'R1671:Raet1d'

187621

Institutional Source

Beutler Lab

Gene Symbol

Raet1d

Ensembl Gene

ENSMUSG00000078452

Gene Name

retinoic acid early transcript delta

Synonyms

RAE-1delta

MMRRC Submission

039707-MU

Accession Numbers

Essential gene?

Probably non essential (E-score: 0.071) question?

Stock #

R1671 (G1)

Quality Score

156

Status

Validated

Chromosome

Chromosomal Location

22236451-22250038 bp(+) (GRCm39)

Type of Mutation

start codon destroyed

DNA Base Change (assembly)

A to G at 22238614 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Methionine to Valine at position 1 (M1V)

Ref Sequence

ENSEMBL: ENSMUSP00000138328 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000095795] [ENSMUST00000178026] [ENSMUST00000182677]

AlphaFold

Q9JI58

Predicted Effect

probably null
Transcript: ENSMUST00000095795
AA Change: M1V

PolyPhen 2 Score 0.177 (Sensitivity: 0.92; Specificity: 0.87)

SMART Domains

Protein: ENSMUSP00000093471
Gene: ENSMUSG00000078452
AA Change: M1V

Domain	Start	End	E-Value	Type
signal peptide	1	28	N/A	INTRINSIC
Pfam:MHC_I_2	31	200	2.6e-110	PFAM
low complexity region	207	227	N/A	INTRINSIC
transmembrane domain	231	248	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000178026

SMART Domains

Protein: ENSMUSP00000136032
Gene: ENSMUSG00000053219

Domain	Start	End	E-Value	Type
signal peptide	1	28	N/A	INTRINSIC
Pfam:MHC_I_2	31	202	7.3e-112	PFAM
low complexity region	209	229	N/A	INTRINSIC
transmembrane domain	233	250	N/A	INTRINSIC

Predicted Effect

probably null
Transcript: ENSMUST00000182677
AA Change: M1V

PolyPhen 2 Score 0.177 (Sensitivity: 0.92; Specificity: 0.87)

SMART Domains

Protein: ENSMUSP00000138328
Gene: ENSMUSG00000078452
AA Change: M1V

Domain	Start	End	E-Value	Type
signal peptide	1	28	N/A	INTRINSIC
Pfam:MHC_I_2	31	200	5.4e-119	PFAM
low complexity region	207	227	N/A	INTRINSIC
transmembrane domain	231	248	N/A	INTRINSIC

Meta Mutation Damage Score

0.9755

Coding Region Coverage

1x: 99.1%
3x: 98.4%
10x: 96.6%
20x: 93.3%

Validation Efficiency

100% (70/70)

Allele List at MGI

Other mutations in this stock

Total: 61 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
4930578I06Rik	A	C	14: 64,210,637 (GRCm39)	L197R	probably benign	Het
Arglu1	A	G	8: 8,733,896 (GRCm39)	V140A	possibly damaging	Het
Arhgef28	T	C	13: 98,067,542 (GRCm39)	E1461G	possibly damaging	Het
Best3	A	T	10: 116,860,573 (GRCm39)	D611V	possibly damaging	Het
Cenpf	T	C	1: 189,411,341 (GRCm39)		probably null	Het
Cenpj	A	C	14: 56,802,502 (GRCm39)	M21R	probably damaging	Het
Cltc	A	T	11: 86,623,421 (GRCm39)	H201Q	possibly damaging	Het
Col28a1	A	T	6: 8,083,773 (GRCm39)	N561K	possibly damaging	Het
Cyp2c70	G	A	19: 40,142,081 (GRCm39)	P470L	probably damaging	Het
Cyp4f14	G	A	17: 33,135,883 (GRCm39)		probably benign	Het
Ddi1	A	T	9: 6,266,225 (GRCm39)	V48D	possibly damaging	Het
Dnah11	A	C	12: 117,880,523 (GRCm39)	Y3866D	probably damaging	Het
Dnah9	A	G	11: 65,818,789 (GRCm39)	V3183A	probably damaging	Het
Elmo1	T	A	13: 20,472,054 (GRCm39)		probably benign	Het
Fap	T	A	2: 62,384,179 (GRCm39)	Y9F	possibly damaging	Het
Fbxo15	T	A	18: 84,977,231 (GRCm39)	S93T	possibly damaging	Het
Gal3st2	C	T	1: 93,801,400 (GRCm39)	R19C	probably damaging	Het
Gmnn	A	T	13: 24,936,054 (GRCm39)	*207R	probably null	Het
Gucy1a1	A	C	3: 82,013,529 (GRCm39)	I371S	probably damaging	Het
H1f11-ps	C	A	19: 47,159,294 (GRCm39)	V94L	possibly damaging	Het
Igsf10	G	T	3: 59,235,921 (GRCm39)	S1420*	probably null	Het
Itih5	G	T	2: 10,191,782 (GRCm39)	V106L	probably benign	Het
Itsn1	T	A	16: 91,609,038 (GRCm39)	I201K	probably damaging	Het
Kirrel1	C	T	3: 86,996,458 (GRCm39)	M380I	probably null	Het
Lars2	C	T	9: 123,247,344 (GRCm39)	T283I	probably benign	Het
Loxhd1	T	C	18: 77,492,498 (GRCm39)	I1313T	probably damaging	Het
Mamdc4	T	A	2: 25,458,235 (GRCm39)	R368*	probably null	Het
Mdga1	A	T	17: 30,069,603 (GRCm39)	Y422N	probably damaging	Het
Mro	A	T	18: 74,003,126 (GRCm39)		probably benign	Het
Mroh2b	T	C	15: 4,980,776 (GRCm39)		probably null	Het
Nlrp1b	C	A	11: 71,092,085 (GRCm39)	V14L	probably benign	Het
Nos3	A	G	5: 24,588,838 (GRCm39)	D1157G	probably damaging	Het
Nrxn2	C	A	19: 6,523,780 (GRCm39)	R598S	probably damaging	Het
Or2av9	A	T	11: 58,381,435 (GRCm39)	W49R	possibly damaging	Het
Or4k1	T	C	14: 50,377,290 (GRCm39)	K269E	probably damaging	Het
Or52ae9	C	A	7: 103,389,617 (GRCm39)	A277S	possibly damaging	Het
Or8b101	A	G	9: 38,020,428 (GRCm39)	M144V	probably benign	Het
Otog	A	T	7: 45,911,210 (GRCm39)	D687V	probably damaging	Het
Pcsk5	C	T	19: 17,432,232 (GRCm39)	C1461Y	probably damaging	Het
Rnf6	A	T	5: 146,147,998 (GRCm39)	L340*	probably null	Het
Rsl1d1	T	C	16: 11,019,245 (GRCm39)	T99A	probably damaging	Het
Sbno1	A	T	5: 124,530,130 (GRCm39)		probably null	Het
Sipa1l1	A	G	12: 82,444,235 (GRCm39)	Y982C	probably damaging	Het
Sorbs3	G	T	14: 70,428,915 (GRCm39)	R417S	possibly damaging	Het
Sorl1	A	G	9: 41,885,296 (GRCm39)	C2102R	probably damaging	Het
Sp140l2	C	T	1: 85,235,106 (GRCm39)		probably null	Het
Sptbn1	T	A	11: 30,092,245 (GRCm39)	I494F	possibly damaging	Het
Tank	T	A	2: 61,480,097 (GRCm39)	V211E	probably damaging	Het
Tbcd	T	A	11: 121,488,120 (GRCm39)	D840E	probably benign	Het
Tg	T	A	15: 66,564,236 (GRCm39)	C1146S	possibly damaging	Het
Tiam2	A	T	17: 3,557,109 (GRCm39)	E110V	probably damaging	Het
Tle4	A	T	19: 14,431,103 (GRCm39)	W560R	probably damaging	Het
Triml2	G	A	8: 43,636,780 (GRCm39)	R76H	possibly damaging	Het
Ttn	T	C	2: 76,541,964 (GRCm39)	E25347G	probably damaging	Het
Ube2e2	A	G	14: 18,586,889 (GRCm38)	L124P	probably damaging	Het
Vmn2r81	A	G	10: 79,103,265 (GRCm39)	K153E	probably benign	Het
Wnt16	A	T	6: 22,298,178 (GRCm39)	Y348F	probably damaging	Het
Xpo6	A	G	7: 125,707,715 (GRCm39)	V897A	possibly damaging	Het
Zbtb26	T	C	2: 37,326,377 (GRCm39)	T220A	probably benign	Het
Zik1	A	T	7: 10,224,675 (GRCm39)	S141T	probably damaging	Het
Zkscan3	A	G	13: 21,580,305 (GRCm39)	Y128H	possibly damaging	Het

Other mutations in Raet1d

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL00958:Raet1d	APN	10	22,246,791 (GRCm39)	missense	possibly damaging	0.82
IGL02011:Raet1d	APN	10	22,247,473 (GRCm39)	missense	probably damaging	1.00
FR4340:Raet1d	UTSW	10	22,247,458 (GRCm39)	missense	probably benign
FR4342:Raet1d	UTSW	10	22,247,458 (GRCm39)	missense	probably benign
FR4449:Raet1d	UTSW	10	22,246,814 (GRCm39)	small insertion	probably benign
FR4589:Raet1d	UTSW	10	22,246,817 (GRCm39)	nonsense	probably null
PIT4434001:Raet1d	UTSW	10	22,247,433 (GRCm39)	nonsense	probably null
R0241:Raet1d	UTSW	10	22,247,328 (GRCm39)	missense	probably benign	0.21
R0241:Raet1d	UTSW	10	22,247,328 (GRCm39)	missense	probably benign	0.21
R0280:Raet1d	UTSW	10	22,246,782 (GRCm39)	missense	probably damaging	1.00
R0790:Raet1d	UTSW	10	22,246,795 (GRCm39)	missense	probably damaging	1.00
R1901:Raet1d	UTSW	10	22,247,350 (GRCm39)	missense	probably damaging	0.96
R2018:Raet1d	UTSW	10	22,246,911 (GRCm39)	missense	probably damaging	1.00
R6004:Raet1d	UTSW	10	22,247,293 (GRCm39)	missense	probably damaging	1.00
R6210:Raet1d	UTSW	10	22,246,849 (GRCm39)	missense	probably damaging	1.00
R7661:Raet1d	UTSW	10	22,248,156 (GRCm39)	missense	possibly damaging	0.73
R8385:Raet1d	UTSW	10	22,246,817 (GRCm39)	missense	probably benign	0.03

Predicted Primers

PCR Primer
(F):5'- AAGGCACAGGAGTGATCCCCTAAG -3'
(R):5'- GTCATGGAAAGCCAGAGTTCCCAG -3'

Sequencing Primer
(F):5'- GAGTGATCCCCTAAGAAATTTAAGG -3'
(R):5'- CAGAGTTCCCAGTTGCTGTG -3'

Posted On

2014-05-09