Mutagenetix > Incidental Mutation

Incidental Mutation 'R0173:Nedd1'

23726

Institutional Source

Beutler Lab

Gene Symbol

Nedd1

Ensembl Gene

ENSMUSG00000019988

Gene Name

neural precursor cell expressed, developmentally down-regulated gene 1

Synonyms

MMRRC Submission

038445-MU

Accession Numbers

Essential gene?

Probably essential (E-score: 0.964) question?

Stock #

R0173 (G1)

Quality Score

225

Status

Validated (trace)

Chromosome

Chromosomal Location

92520608-92558282 bp(-) (GRCm39)

Type of Mutation

missense

DNA Base Change (assembly)

T to C at 92534745 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Aspartic acid to Glycine at position 255 (D255G)

Ref Sequence

ENSEMBL: ENSMUSP00000020163 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000020163]

AlphaFold

P33215

Predicted Effect

probably benign
Transcript: ENSMUST00000020163
AA Change: D255G

PolyPhen 2 Score 0.301 (Sensitivity: 0.90; Specificity: 0.89)

SMART Domains

Protein: ENSMUSP00000020163
Gene: ENSMUSG00000019988
AA Change: D255G

Domain	Start	End	E-Value	Type
WD40	21	63	5.97e-1	SMART
WD40	67	105	9.75e-3	SMART
WD40	108	147	6.19e-5	SMART
WD40	149	191	6.42e-1	SMART
WD40	194	235	9.1e-3	SMART
WD40	238	276	2.24e-2	SMART
low complexity region	555	568	N/A	INTRINSIC

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000214417

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000215970

Meta Mutation Damage Score

0.1237

Coding Region Coverage

1x: 99.2%
3x: 98.5%
10x: 97.0%
20x: 95.1%

Validation Efficiency

96% (64/67)

Allele List at MGI

Other mutations in this stock

Total: 64 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
A330008L17Rik	G	A	8: 100,148,286 (GRCm39)		noncoding transcript	Het
Akt1s1	C	T	7: 44,502,284 (GRCm39)	P95S	possibly damaging	Het
Ambra1	T	C	2: 91,640,564 (GRCm39)		probably benign	Het
Aunip	T	A	4: 134,250,861 (GRCm39)	W269R	probably damaging	Het
Bmper	A	G	9: 23,136,125 (GRCm39)	M69V	probably benign	Het
Cdh2	A	T	18: 16,783,314 (GRCm39)		probably benign	Het
Cenpe	T	C	3: 134,965,744 (GRCm39)	M2074T	probably benign	Het
Col14a1	C	T	15: 55,351,928 (GRCm39)	P1592S	probably damaging	Het
Csgalnact1	G	A	8: 68,913,681 (GRCm39)	R175C	probably damaging	Het
Dtx1	A	G	5: 120,820,818 (GRCm39)		probably benign	Het
Elmod3	T	C	6: 72,554,571 (GRCm39)	D154G	probably damaging	Het
Eno1b	T	C	18: 48,180,806 (GRCm39)	I328T	probably benign	Het
Gab1	T	C	8: 81,526,789 (GRCm39)	D103G	possibly damaging	Het
Gon4l	A	G	3: 88,765,710 (GRCm39)	D377G	probably damaging	Het
Gramd1c	C	T	16: 43,818,196 (GRCm39)	R328K	possibly damaging	Het
Hdac3	A	G	18: 38,074,806 (GRCm39)	S312P	probably damaging	Het
Hmcn2	T	C	2: 31,328,343 (GRCm39)		probably null	Het
Intu	T	C	3: 40,629,776 (GRCm39)		probably null	Het
Lnpk	T	C	2: 74,381,409 (GRCm39)	K118R	probably damaging	Het
Lzts3	A	C	2: 130,476,688 (GRCm39)	*587G	probably null	Het
Mctp2	C	T	7: 71,896,855 (GRCm39)		probably null	Het
Miox	C	T	15: 89,220,477 (GRCm39)	L189F	possibly damaging	Het
Mmp23	G	T	4: 155,735,222 (GRCm39)	R374S	possibly damaging	Het
Morc3	G	A	16: 93,629,094 (GRCm39)		probably null	Het
Mymk	C	T	2: 26,952,262 (GRCm39)	A161T	probably damaging	Het
Ncoa6	TGC	TGCGC	2: 155,250,211 (GRCm39)		probably null	Het
Neb	T	C	2: 52,133,859 (GRCm39)	S3375G	probably damaging	Het
Nid2	T	C	14: 19,852,400 (GRCm39)		probably benign	Het
Nr1d2	A	G	14: 18,215,502 (GRCm38)		probably benign	Het
Nus1	A	G	10: 52,294,094 (GRCm39)	H86R	possibly damaging	Het
Or5b118	A	T	19: 13,449,065 (GRCm39)	I244F	probably benign	Het
Or7g17	A	G	9: 18,768,325 (GRCm39)	I135V	probably damaging	Het
Plcxd2	A	T	16: 45,785,542 (GRCm39)		probably null	Het
Prdm9	T	A	17: 15,764,275 (GRCm39)	D835V	probably benign	Het
Prdm9	A	G	17: 15,764,297 (GRCm39)	W828R	probably benign	Het
Prkd2	T	C	7: 16,582,969 (GRCm39)	S244P	probably benign	Het
Psmd4	A	T	3: 94,940,234 (GRCm39)	L159H	probably damaging	Het
Qprt	C	T	7: 126,707,543 (GRCm39)	G215E	probably damaging	Het
Rab3gap2	C	A	1: 184,982,104 (GRCm39)	H385Q	possibly damaging	Het
Rapgef5	A	G	12: 117,652,411 (GRCm39)	D300G	probably benign	Het
Rbl1	A	T	2: 157,001,605 (GRCm39)	N894K	probably benign	Het
Rgma	C	T	7: 73,067,302 (GRCm39)	R280W	probably damaging	Het
Rims4	C	T	2: 163,705,849 (GRCm39)	V262M	possibly damaging	Het
Rundc3a	T	A	11: 102,289,071 (GRCm39)		probably benign	Het
Scaf11	A	T	15: 96,318,075 (GRCm39)	D496E	probably benign	Het
Scn9a	T	C	2: 66,363,437 (GRCm39)	Y936C	probably damaging	Het
Sdk1	A	G	5: 142,159,564 (GRCm39)		probably benign	Het
Serpinb9	G	A	13: 33,194,705 (GRCm39)	D154N	probably benign	Het
Slc48a1	A	T	15: 97,688,555 (GRCm39)	H131L	possibly damaging	Het
Slco1a6	T	C	6: 142,048,848 (GRCm39)	N311D	probably benign	Het
Sorl1	A	G	9: 41,979,229 (GRCm39)	V423A	probably damaging	Het
Srrm2	C	A	17: 24,034,103 (GRCm39)		probably benign	Het
Srsf12	A	T	4: 33,226,117 (GRCm39)	S122C	probably damaging	Het
Suclg2	G	C	6: 95,452,154 (GRCm39)		probably benign	Het
Tbpl1	A	T	10: 22,583,523 (GRCm39)	L149*	probably null	Het
Tmem144	G	A	3: 79,746,580 (GRCm39)		probably benign	Het
Tmem63a	T	C	1: 180,782,363 (GRCm39)		probably benign	Het
Tut1	C	T	19: 8,942,847 (GRCm39)	R645*	probably null	Het
Ubqln4	T	A	3: 88,462,686 (GRCm39)	D50E	probably benign	Het
Ubr5	A	G	15: 38,004,919 (GRCm39)	S1227P	probably damaging	Het
Vipas39	A	G	12: 87,297,285 (GRCm39)		probably benign	Het
Vmn1r28	G	A	6: 58,242,702 (GRCm39)	A182T	probably benign	Het
Vps26b	G	A	9: 26,924,101 (GRCm39)	T214I	probably benign	Het
Xpc	A	G	6: 91,481,717 (GRCm39)		probably benign	Het

Other mutations in Nedd1

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL00764:Nedd1	APN	10	92,530,836 (GRCm39)	splice site	probably benign
IGL00988:Nedd1	APN	10	92,525,548 (GRCm39)	missense	possibly damaging	0.71
IGL01563:Nedd1	APN	10	92,534,031 (GRCm39)	critical splice donor site	probably null
IGL01588:Nedd1	APN	10	92,522,124 (GRCm39)	missense	probably benign	0.12
IGL01988:Nedd1	APN	10	92,550,021 (GRCm39)	missense	probably benign	0.39
IGL02706:Nedd1	APN	10	92,522,147 (GRCm39)	missense	possibly damaging	0.88
IGL02938:Nedd1	APN	10	92,525,519 (GRCm39)	nonsense	probably null
IGL03011:Nedd1	APN	10	92,525,503 (GRCm39)	missense	possibly damaging	0.92
Brainless	UTSW	10	92,526,635 (GRCm39)	missense	probably benign	0.01
R0125:Nedd1	UTSW	10	92,527,791 (GRCm39)	missense	possibly damaging	0.93
R0244:Nedd1	UTSW	10	92,552,127 (GRCm39)	intron	probably benign
R0645:Nedd1	UTSW	10	92,527,693 (GRCm39)	splice site	probably null
R0791:Nedd1	UTSW	10	92,555,476 (GRCm39)	missense	probably damaging	1.00
R1490:Nedd1	UTSW	10	92,536,660 (GRCm39)	missense	probably damaging	1.00
R1522:Nedd1	UTSW	10	92,555,476 (GRCm39)	missense	probably damaging	1.00
R1797:Nedd1	UTSW	10	92,534,601 (GRCm39)	missense	possibly damaging	0.46
R1984:Nedd1	UTSW	10	92,550,022 (GRCm39)	missense	possibly damaging	0.63
R2474:Nedd1	UTSW	10	92,555,465 (GRCm39)	missense	probably damaging	0.99
R2877:Nedd1	UTSW	10	92,549,988 (GRCm39)	missense	possibly damaging	0.89
R2883:Nedd1	UTSW	10	92,530,860 (GRCm39)	missense	probably damaging	0.98
R4694:Nedd1	UTSW	10	92,555,444 (GRCm39)	missense	probably benign	0.00
R4798:Nedd1	UTSW	10	92,534,772 (GRCm39)	missense	probably benign	0.00
R4830:Nedd1	UTSW	10	92,522,120 (GRCm39)	missense	probably damaging	1.00
R4963:Nedd1	UTSW	10	92,530,893 (GRCm39)	missense	probably damaging	1.00
R5174:Nedd1	UTSW	10	92,547,074 (GRCm39)	missense	possibly damaging	0.77
R5329:Nedd1	UTSW	10	92,522,102 (GRCm39)	missense	probably damaging	1.00
R5404:Nedd1	UTSW	10	92,552,054 (GRCm39)	missense	probably benign	0.04
R5534:Nedd1	UTSW	10	92,530,894 (GRCm39)	missense	probably benign	0.01
R6045:Nedd1	UTSW	10	92,530,962 (GRCm39)	nonsense	probably null
R6154:Nedd1	UTSW	10	92,534,104 (GRCm39)	missense	possibly damaging	0.65
R6512:Nedd1	UTSW	10	92,527,737 (GRCm39)	missense	probably benign
R6692:Nedd1	UTSW	10	92,534,199 (GRCm39)	missense	possibly damaging	0.88
R6693:Nedd1	UTSW	10	92,534,199 (GRCm39)	missense	possibly damaging	0.88
R6943:Nedd1	UTSW	10	92,547,168 (GRCm39)	missense	probably damaging	1.00
R7011:Nedd1	UTSW	10	92,526,635 (GRCm39)	missense	probably benign	0.01
R7406:Nedd1	UTSW	10	92,547,185 (GRCm39)	splice site	probably null
R7455:Nedd1	UTSW	10	92,536,787 (GRCm39)	missense	probably benign	0.01
R7587:Nedd1	UTSW	10	92,534,592 (GRCm39)	missense	probably benign	0.01
R7745:Nedd1	UTSW	10	92,550,034 (GRCm39)	missense	probably benign
R8104:Nedd1	UTSW	10	92,527,778 (GRCm39)	missense	probably damaging	1.00
R8209:Nedd1	UTSW	10	92,527,797 (GRCm39)	missense	probably benign
R8226:Nedd1	UTSW	10	92,527,797 (GRCm39)	missense	probably benign
R8925:Nedd1	UTSW	10	92,558,258 (GRCm39)	start gained	probably benign
R8927:Nedd1	UTSW	10	92,558,258 (GRCm39)	start gained	probably benign

Predicted Primers

PCR Primer
(F):5'- GAGCTGCCTTTGCTTAAACTTGCC -3'
(R):5'- TGTCTGTGAGACGTATCCAAACTGC -3'

Sequencing Primer
(F):5'- CTGAAGATTGCTGCTATATCTGAAC -3'
(R):5'- GAGACGTATCCAAACTGCTTTAAAC -3'

Posted On

2013-04-16