Mutagenetix > Incidental Mutation

Incidental Mutation 'R6154:Nedd1'

489457

Institutional Source

Beutler Lab

Gene Symbol

Nedd1

Ensembl Gene

ENSMUSG00000019988

Gene Name

neural precursor cell expressed, developmentally down-regulated gene 1

Synonyms

MMRRC Submission

044301-MU

Accession Numbers

Essential gene?

Probably essential (E-score: 0.962) question?

Stock #

R6154 (G1)

Quality Score

225.009

Status

Validated

Chromosome

Chromosomal Location

92684746-92722420 bp(-) (GRCm38)

Type of Mutation

missense

DNA Base Change (assembly)

T to A at 92698242 bp (GRCm38)

Zygosity

Heterozygous

Amino Acid Change

Isoleucine to Phenylalanine at position 349 (I349F)

Ref Sequence

ENSEMBL: ENSMUSP00000020163 (fasta)

Gene Model

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

AlphaFold

P33215

Predicted Effect

possibly damaging
Transcript: ENSMUST00000020163
AA Change: I349F

PolyPhen 2 Score 0.646 (Sensitivity: 0.87; Specificity: 0.91)

SMART Domains

Protein: ENSMUSP00000020163
Gene: ENSMUSG00000019988
AA Change: I349F

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

0.1413

Coding Region Coverage

1x: 99.9%
3x: 99.6%
10x: 98.1%
20x: 94.8%

Validation Efficiency

97% (70/72)

Allele List at MGI

Other mutations in this stock

Total: 72 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
Acss3	T	G	10: 107,123,349	I79L	probably benign	Het
Adam6a	C	T	12: 113,545,672	T555I	probably benign	Het
Adap1	A	G	5: 139,307,776	V60A	possibly damaging	Het
Afg3l2	G	T	18: 67,421,259	L458M	probably damaging	Het
Angpt1	T	C	15: 42,523,655	E101G	probably damaging	Het
Asxl2	T	C	12: 3,496,593	V459A	possibly damaging	Het
Cabs1	C	T	5: 87,979,754	T88I	possibly damaging	Het
Camta2	G	A	11: 70,678,385	A578V	probably damaging	Het
Cdc16	A	G	8: 13,768,609	N316D	possibly damaging	Het
Chrm3	T	A	13: 9,878,440	M187L	possibly damaging	Het
Clcn4	T	C	7: 7,291,482	T367A	probably benign	Het
Clcn7	T	C	17: 25,157,954	S654P	probably damaging	Het
Col6a3	T	A	1: 90,773,665	T2510S	unknown	Het
Crisp4	T	C	1: 18,122,788	E192G	possibly damaging	Het
Dmbt1	T	A	7: 131,109,641		probably null	Het
Dnah5	T	G	15: 28,204,031	L18R	probably benign	Het
Dnah9	T	G	11: 65,855,338	D3983A	probably benign	Het
Dock5	C	A	14: 67,859,912	V71L	probably benign	Het
Dync1h1	T	C	12: 110,617,993	V610A	probably damaging	Het
Dynlrb2	A	G	8: 116,515,689	Y86C	probably benign	Het
Ep400	T	C	5: 110,755,933	I267V	probably damaging	Het
Gaa	A	G	11: 119,278,352	Y575C	probably damaging	Het
Gm8094	T	A	14: 43,076,563	D24V	probably benign	Het
Gm884	A	G	11: 103,614,143	V2333A	probably benign	Het
Grina	T	C	15: 76,248,887	I244T	possibly damaging	Het
Haus6	A	G	4: 86,583,756	L626P	possibly damaging	Het
Hexdc	A	T	11: 121,221,271	H439L	probably benign	Het
Ifna12	A	T	4: 88,603,294	C5*	probably null	Het
Igf2bp2	G	T	16: 22,076,093	S300*	probably null	Het
Ighv6-5	T	C	12: 114,416,742	R71G	probably benign	Het
Lrrn4cl	T	C	19: 8,851,888	S77P	probably damaging	Het
Mast4	A	G	13: 102,787,421	L302P	probably damaging	Het
Mink1	T	C	11: 70,610,101	V831A	possibly damaging	Het
Mme	T	A	3: 63,300,253	I40N	probably damaging	Het
Myh2	A	G	11: 67,186,612	T858A	probably benign	Het
Ncbp3	T	A	11: 73,049,874	Y67N	probably damaging	Het
Nek11	A	T	9: 105,323,169	*81K	probably null	Het
Nrip1	A	G	16: 76,293,830	Y280H	probably damaging	Het
Obsl1	T	C	1: 75,500,144	D722G	probably benign	Het
Olfr1117-ps1	T	G	2: 87,309,558	S256R	probably benign	Het
Olfr1209	A	G	2: 88,910,390	M1T	probably null	Het
Olfr152	A	G	2: 87,782,756	D72G	possibly damaging	Het
Olfr164	A	T	16: 19,286,431	I104K	probably damaging	Het
Olfr789	C	T	10: 129,487,676	T222I	probably damaging	Het
Pcdhb6	A	G	18: 37,334,913	I296V	probably benign	Het
Pcnx2	G	T	8: 125,762,813	L1681M	probably damaging	Het
Pdlim5	T	C	3: 142,277,913	R360G	possibly damaging	Het
Peli2	C	T	14: 48,250,594	Q81*	probably null	Het
Pitpnb	C	T	5: 111,338,397	Q56*	probably null	Het
Ppp1r3a	A	G	6: 14,754,604	S215P	possibly damaging	Het
Prrt3	A	G	6: 113,495,028	Y728H	probably damaging	Het
Rsf1	A	AAGGCGACGG	7: 97,579,904		probably null	Het
Rsf1	GCG	GCGACGGCGACG	7: 97,579,907		probably benign	Het
Sbno1	T	C	5: 124,378,479	H1277R	possibly damaging	Het
Siglecg	C	A	7: 43,412,017	N481K	possibly damaging	Het
Sirt6	C	T	10: 81,626,505	G20D	probably damaging	Het
Sit1	C	A	4: 43,482,981	R89S	probably benign	Het
Slc7a12	A	G	3: 14,481,034	R80G	probably damaging	Het
Smok3c	T	A	5: 138,064,485	M78K	probably benign	Het
Stk10	T	A	11: 32,603,654		probably null	Het
Tada2b	A	G	5: 36,476,664	V190A	probably damaging	Het
Tnk1	C	T	11: 69,856,954	V41I	probably damaging	Het
Tpr	T	A	1: 150,423,816	V1146E	probably benign	Het
Trappc9	T	C	15: 73,058,081	D142G	probably benign	Het
Trpm3	T	C	19: 22,987,814	Y1558H	probably damaging	Het
Unc5c	C	A	3: 141,678,153	S97R	probably damaging	Het
Vmn1r172	T	C	7: 23,660,158	I156T	probably damaging	Het
Vmn2r51	A	T	7: 10,087,994	M588K	possibly damaging	Het
Vps26a	T	G	10: 62,468,340	E117D	probably damaging	Het
Zfp451	A	T	1: 33,803,546		probably benign	Het
Zfp534	C	A	4: 147,674,688	R508I	probably benign	Het
Zp3r	C	T	1: 130,598,905	C187Y	probably damaging	Het

Other mutations in Nedd1

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL00764:Nedd1	APN	10	92694974	splice site	probably benign
IGL00988:Nedd1	APN	10	92689686	missense	possibly damaging	0.71
IGL01563:Nedd1	APN	10	92698169	critical splice donor site	probably null
IGL01588:Nedd1	APN	10	92686262	missense	probably benign	0.12
IGL01988:Nedd1	APN	10	92714159	missense	probably benign	0.39
IGL02706:Nedd1	APN	10	92686285	missense	possibly damaging	0.88
IGL02938:Nedd1	APN	10	92689657	nonsense	probably null
IGL03011:Nedd1	APN	10	92689641	missense	possibly damaging	0.92
Brainless	UTSW	10	92690773	missense	probably benign	0.01
R0125:Nedd1	UTSW	10	92691929	missense	possibly damaging	0.93
R0173:Nedd1	UTSW	10	92698883	missense	probably benign	0.30
R0244:Nedd1	UTSW	10	92716265	intron	probably benign
R0645:Nedd1	UTSW	10	92691831	splice site	probably null
R0791:Nedd1	UTSW	10	92719614	missense	probably damaging	1.00
R1490:Nedd1	UTSW	10	92700798	missense	probably damaging	1.00
R1522:Nedd1	UTSW	10	92719614	missense	probably damaging	1.00
R1797:Nedd1	UTSW	10	92698739	missense	possibly damaging	0.46
R1984:Nedd1	UTSW	10	92714160	missense	possibly damaging	0.63
R2474:Nedd1	UTSW	10	92719603	missense	probably damaging	0.99
R2877:Nedd1	UTSW	10	92714126	missense	possibly damaging	0.89
R2883:Nedd1	UTSW	10	92694998	missense	probably damaging	0.98
R4694:Nedd1	UTSW	10	92719582	missense	probably benign	0.00
R4798:Nedd1	UTSW	10	92698910	missense	probably benign	0.00
R4830:Nedd1	UTSW	10	92686258	missense	probably damaging	1.00
R4963:Nedd1	UTSW	10	92695031	missense	probably damaging	1.00
R5174:Nedd1	UTSW	10	92711212	missense	possibly damaging	0.77
R5329:Nedd1	UTSW	10	92686240	missense	probably damaging	1.00
R5404:Nedd1	UTSW	10	92716192	missense	probably benign	0.04
R5534:Nedd1	UTSW	10	92695032	missense	probably benign	0.01
R6045:Nedd1	UTSW	10	92695100	nonsense	probably null
R6512:Nedd1	UTSW	10	92691875	missense	probably benign
R6692:Nedd1	UTSW	10	92698337	missense	possibly damaging	0.88
R6693:Nedd1	UTSW	10	92698337	missense	possibly damaging	0.88
R6943:Nedd1	UTSW	10	92711306	missense	probably damaging	1.00
R7011:Nedd1	UTSW	10	92690773	missense	probably benign	0.01
R7406:Nedd1	UTSW	10	92711323	splice site	probably null
R7455:Nedd1	UTSW	10	92700925	missense	probably benign	0.01
R7587:Nedd1	UTSW	10	92698730	missense	probably benign	0.01
R7745:Nedd1	UTSW	10	92714172	missense	probably benign
R8104:Nedd1	UTSW	10	92691916	missense	probably damaging	1.00
R8209:Nedd1	UTSW	10	92691935	missense	probably benign
R8226:Nedd1	UTSW	10	92691935	missense	probably benign
R8925:Nedd1	UTSW	10	92722396	start gained	probably benign
R8927:Nedd1	UTSW	10	92722396	start gained	probably benign

Predicted Primers

PCR Primer
(F):5'- TCCGTAACAAGGCAGAGTTAATAAG -3'
(R):5'- GCAAAGTTCAGATATAGCAGCAATC -3'

Sequencing Primer
(F):5'- CAATGGTATCTACTAATCAGTTTGCC -3'
(R):5'- GTTCAGATATAGCAGCAATCTTCAG -3'

Posted On

2017-10-10