Mutagenetix > Incidental Mutation

Incidental Mutation 'R2020:Ngef'

223731

Institutional Source

Beutler Lab

Gene Symbol

Ngef

Ensembl Gene

ENSMUSG00000026259

Gene Name

neuronal guanine nucleotide exchange factor

Synonyms

ephexin, Tims2

MMRRC Submission

040029-MU

Accession Numbers

Essential gene?

Non essential (E-score: 0.000) question?

Stock #

R2020 (G1)

Quality Score

225

Status

Validated

Chromosome

Chromosomal Location

87404556-87501592 bp(-) (GRCm39)

Type of Mutation

missense

DNA Base Change (assembly)

T to C at 87473690 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Arginine to Glycine at position 31 (R31G)

Ref Sequence

ENSEMBL: ENSMUSP00000066894 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000068681] [ENSMUST00000166055]

AlphaFold

no structure available at present

Predicted Effect

probably benign
Transcript: ENSMUST00000068681
AA Change: R31G

PolyPhen 2 Score 0.428 (Sensitivity: 0.89; Specificity: 0.90)

SMART Domains

Protein: ENSMUSP00000066894
Gene: ENSMUSG00000026259
AA Change: R31G

Domain	Start	End	E-Value	Type
low complexity region	213	226	N/A	INTRINSIC
RhoGEF	277	456	8.16e-46	SMART
PH	490	603	1.2e-7	SMART
SH3	615	672	8.43e-15	SMART

Predicted Effect

probably benign
Transcript: ENSMUST00000166055

SMART Domains

Protein: ENSMUSP00000132099
Gene: ENSMUSG00000079434

Domain	Start	End	E-Value	Type
Pfam:BNR_2	32	110	8e-11	PFAM

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000172004

Meta Mutation Damage Score

0.0898

Coding Region Coverage

1x: 99.2%
3x: 98.5%
10x: 96.8%
20x: 93.6%

Validation Efficiency

99% (87/88)

MGI Phenotype

PHENOTYPE: Mice homozygous for a knock-out allele are viable and fertile and show no overt axonal phenotype; however, cultured retinal ganglion cells display defects in axonal outgrowth and ephrin-induced growth cone collapse. [provided by MGI curators]

Allele List at MGI

Other mutations in this stock

Total: 86 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
1600012P17Rik	C	A	1: 158,796,482 (GRCm39)		noncoding transcript	Het
Adam17	G	A	12: 21,399,876 (GRCm39)	R177C	probably damaging	Het
Ak7	G	A	12: 105,711,591 (GRCm39)		probably null	Het
Akap9	T	C	5: 4,011,967 (GRCm39)	V890A	probably damaging	Het
Alg6	A	G	4: 99,626,369 (GRCm39)	N59S	probably damaging	Het
Alkbh5	G	T	11: 60,429,375 (GRCm39)	A43S	probably benign	Het
Anxa2	C	A	9: 69,391,099 (GRCm39)	D162E	probably damaging	Het
Arap1	A	G	7: 101,050,725 (GRCm39)	H1136R	probably benign	Het
Arhgap18	A	G	10: 26,730,900 (GRCm39)	R121G	probably benign	Het
Arhgef4	A	T	1: 34,762,891 (GRCm39)	T716S	unknown	Het
Atg2a	T	C	19: 6,300,299 (GRCm39)		probably null	Het
Ccdc27	T	C	4: 154,117,770 (GRCm39)	I480V	probably null	Het
Cdipt	T	C	7: 126,576,105 (GRCm39)	V20A	possibly damaging	Het
Cgrrf1	C	T	14: 47,067,902 (GRCm39)		probably benign	Het
Chd7	G	A	4: 8,855,226 (GRCm39)	V2152I	probably benign	Het
Chd8	T	A	14: 52,452,698 (GRCm39)	S1274C	probably damaging	Het
Chuk	A	T	19: 44,095,782 (GRCm39)	M17K	possibly damaging	Het
Col14a1	C	T	15: 55,309,577 (GRCm39)		probably benign	Het
Col20a1	G	A	2: 180,654,956 (GRCm39)		probably null	Het
Cped1	A	G	6: 22,143,963 (GRCm39)	I570V	probably benign	Het
Cul9	C	G	17: 46,833,101 (GRCm39)	A1326P	probably damaging	Het
Ddx27	A	C	2: 166,875,691 (GRCm39)	Q674P	probably damaging	Het
Dennd6a	T	A	14: 26,333,158 (GRCm39)	F131L	probably damaging	Het
Dhx38	G	A	8: 110,283,501 (GRCm39)		probably benign	Het
Dido1	G	T	2: 180,301,378 (GRCm39)	N2175K	unknown	Het
Dmxl1	T	A	18: 50,022,625 (GRCm39)	Y1654*	probably null	Het
Dock7	T	A	4: 98,847,338 (GRCm39)	H1658L	probably damaging	Het
Dync2h1	T	A	9: 7,122,772 (GRCm39)	E2061D	probably damaging	Het
Dync2h1	T	C	9: 7,162,925 (GRCm39)	I555V	probably benign	Het
Eif2ak2	T	C	17: 79,171,392 (GRCm39)	E337G	possibly damaging	Het
Fabp12	T	A	3: 10,315,209 (GRCm39)	D46V	probably benign	Het
Fcgbpl1	T	C	7: 27,855,019 (GRCm39)	S1882P	probably benign	Het
Fech	C	T	18: 64,611,798 (GRCm39)	E79K	probably damaging	Het
Flnc	A	T	6: 29,444,362 (GRCm39)	I693F	probably damaging	Het
Foxp2	G	A	6: 15,324,643 (GRCm39)	C97Y	possibly damaging	Het
Grin2b	A	G	6: 135,710,894 (GRCm39)	M884T	probably benign	Het
Gtf2ird1	T	C	5: 134,445,947 (GRCm39)	D28G	probably damaging	Het
Gtf3c4	C	A	2: 28,723,906 (GRCm39)	G468W	possibly damaging	Het
Ift172	A	T	5: 31,424,585 (GRCm39)	L201*	probably null	Het
Ift70a1	A	G	2: 75,811,279 (GRCm39)	V268A	probably benign	Het
Il1rl2	C	A	1: 40,404,374 (GRCm39)	S498R	probably damaging	Het
Ildr1	C	T	16: 36,545,903 (GRCm39)	R489W	probably damaging	Het
Itga10	G	A	3: 96,559,806 (GRCm39)	G487D	probably damaging	Het
Klk1b8	A	G	7: 43,448,640 (GRCm39)	N128D	probably benign	Het
Lgr6	G	A	1: 135,003,013 (GRCm39)	T79M	probably damaging	Het
Med6	T	C	12: 81,620,651 (GRCm39)	T232A	probably benign	Het
Mgat4e	A	G	1: 134,469,060 (GRCm39)	L328P	probably damaging	Het
Mttp	A	G	3: 137,824,163 (GRCm39)	Y138H	probably damaging	Het
Nipsnap2	C	A	5: 129,830,287 (GRCm39)		probably null	Het
Nlgn2	G	T	11: 69,719,267 (GRCm39)	N194K	probably damaging	Het
Or1q1	G	A	2: 36,887,664 (GRCm39)	V281M	possibly damaging	Het
Or4a72	A	T	2: 89,405,305 (GRCm39)	M255K	possibly damaging	Het
Or5b98	G	A	19: 12,931,696 (GRCm39)	V248I	possibly damaging	Het
Or5m13b	A	G	2: 85,754,087 (GRCm39)	I158M	probably benign	Het
Or8c16	A	G	9: 38,130,728 (GRCm39)	Y203C	possibly damaging	Het
Pcca	T	A	14: 123,050,634 (GRCm39)	M101K	possibly damaging	Het
Plekha6	A	G	1: 133,212,708 (GRCm39)	T671A	possibly damaging	Het
Prex2	G	A	1: 11,232,536 (GRCm39)	V868M	probably damaging	Het
Prkcq	G	A	2: 11,284,332 (GRCm39)	V501I	probably benign	Het
Prom1	T	A	5: 44,168,595 (GRCm39)		probably benign	Het
Ptprd	A	G	4: 76,051,398 (GRCm39)	V41A	probably damaging	Het
Rab39	C	T	9: 53,597,698 (GRCm39)	G189E	possibly damaging	Het
Ret	T	C	6: 118,157,343 (GRCm39)	K236E	possibly damaging	Het
Rfx6	G	A	10: 51,596,153 (GRCm39)		probably null	Het
Rnf213	A	G	11: 119,352,744 (GRCm39)	T3916A	probably damaging	Het
Rpn1	A	G	6: 88,072,665 (GRCm39)	N336S	probably damaging	Het
Sag	G	A	1: 87,733,037 (GRCm39)	A2T	probably damaging	Het
Sco2	T	C	15: 89,256,063 (GRCm39)	Y197C	probably damaging	Het
Sec23b	T	C	2: 144,408,864 (GRCm39)	I183T	possibly damaging	Het
Sec24b	C	T	3: 129,781,377 (GRCm39)	V1166M	probably damaging	Het
Slc27a5	A	T	7: 12,727,339 (GRCm39)	F361Y	probably damaging	Het
Spaca9	A	G	2: 28,586,013 (GRCm39)	L17P	probably damaging	Het
Sqor	T	C	2: 122,646,027 (GRCm39)		probably null	Het
Stx18	A	G	5: 38,292,588 (GRCm39)	H230R	probably damaging	Het
Tas2r130	A	T	6: 131,607,732 (GRCm39)	I21N	probably damaging	Het
Tcaf3	A	G	6: 42,570,658 (GRCm39)	S365P	possibly damaging	Het
Tinagl1	G	A	4: 130,060,765 (GRCm39)	H351Y	probably damaging	Het
Tmc2	T	C	2: 130,074,305 (GRCm39)	Y333H	probably damaging	Het
Trp53bp2	A	T	1: 182,270,384 (GRCm39)	T395S	probably damaging	Het
Tsc22d1	T	C	14: 76,655,773 (GRCm39)	S751P	probably damaging	Het
Ttn	A	G	2: 76,657,368 (GRCm39)		probably benign	Het
Ugdh	T	C	5: 65,574,268 (GRCm39)	Y425C	probably damaging	Het
Vmn1r115	G	A	7: 20,578,094 (GRCm39)	L273F	probably null	Het
Vmn2r109	A	T	17: 20,761,448 (GRCm39)	C636*	probably null	Het
Vmn2r59	A	C	7: 41,693,203 (GRCm39)	Y466D	probably damaging	Het
Zic5	C	T	14: 122,702,242 (GRCm39)	G163D	unknown	Het

Other mutations in Ngef

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL02221:Ngef	APN	1	87,468,418 (GRCm39)	missense	probably benign	0.06
IGL02475:Ngef	APN	1	87,406,872 (GRCm39)	missense	possibly damaging	0.79
IGL02478:Ngef	APN	1	87,408,301 (GRCm39)	splice site	probably benign
IGL03002:Ngef	APN	1	87,437,114 (GRCm39)	splice site	probably null
H8562:Ngef	UTSW	1	87,415,529 (GRCm39)	missense	possibly damaging	0.84
R0078:Ngef	UTSW	1	87,468,387 (GRCm39)	missense	probably benign	0.12
R0145:Ngef	UTSW	1	87,468,370 (GRCm39)	intron	probably benign
R0193:Ngef	UTSW	1	87,437,056 (GRCm39)	missense	probably benign	0.03
R0244:Ngef	UTSW	1	87,415,684 (GRCm39)	unclassified	probably benign
R0486:Ngef	UTSW	1	87,406,848 (GRCm39)	missense	probably damaging	1.00
R0865:Ngef	UTSW	1	87,412,323 (GRCm39)	missense	probably benign
R1824:Ngef	UTSW	1	87,430,986 (GRCm39)	critical splice donor site	probably null
R1994:Ngef	UTSW	1	87,415,626 (GRCm39)	missense	probably damaging	1.00
R4059:Ngef	UTSW	1	87,413,953 (GRCm39)	missense	probably damaging	0.99
R4770:Ngef	UTSW	1	87,405,283 (GRCm39)	missense	probably damaging	1.00
R4959:Ngef	UTSW	1	87,431,070 (GRCm39)	missense	possibly damaging	0.68
R5197:Ngef	UTSW	1	87,437,090 (GRCm39)	nonsense	probably null
R5286:Ngef	UTSW	1	87,473,552 (GRCm39)	missense	probably benign
R5293:Ngef	UTSW	1	87,431,151 (GRCm39)	small deletion	probably benign
R6065:Ngef	UTSW	1	87,405,370 (GRCm39)	missense	probably damaging	1.00
R6192:Ngef	UTSW	1	87,415,622 (GRCm39)	missense	probably damaging	0.98
R6925:Ngef	UTSW	1	87,430,985 (GRCm39)	splice site	probably null
R7176:Ngef	UTSW	1	87,408,417 (GRCm39)	missense	possibly damaging	0.94
R7437:Ngef	UTSW	1	87,408,327 (GRCm39)	missense	probably damaging	0.98
R7760:Ngef	UTSW	1	87,468,495 (GRCm39)	missense	probably benign	0.00
R8058:Ngef	UTSW	1	87,473,744 (GRCm39)	nonsense	probably null
R8142:Ngef	UTSW	1	87,468,463 (GRCm39)	missense	probably benign
R8154:Ngef	UTSW	1	87,468,482 (GRCm39)	missense	probably benign
R8697:Ngef	UTSW	1	87,417,459 (GRCm39)	missense	probably damaging	0.99
R8769:Ngef	UTSW	1	87,408,883 (GRCm39)	missense	probably damaging	1.00
R8784:Ngef	UTSW	1	87,405,293 (GRCm39)	missense	probably damaging	1.00
R8790:Ngef	UTSW	1	87,405,319 (GRCm39)	missense	probably benign	0.10
R8907:Ngef	UTSW	1	87,405,376 (GRCm39)	missense	probably damaging	1.00
R9047:Ngef	UTSW	1	87,431,010 (GRCm39)	missense	probably damaging	0.96
R9050:Ngef	UTSW	1	87,431,010 (GRCm39)	missense	probably damaging	0.96
R9169:Ngef	UTSW	1	87,473,581 (GRCm39)	missense	probably benign	0.43
R9198:Ngef	UTSW	1	87,406,797 (GRCm39)	missense	unknown
R9434:Ngef	UTSW	1	87,408,315 (GRCm39)	missense	possibly damaging	0.89
R9466:Ngef	UTSW	1	87,431,010 (GRCm39)	missense	probably damaging	0.96
R9650:Ngef	UTSW	1	87,415,552 (GRCm39)	missense	possibly damaging	0.90
R9704:Ngef	UTSW	1	87,431,010 (GRCm39)	missense	probably damaging	0.96
R9705:Ngef	UTSW	1	87,431,010 (GRCm39)	missense	probably damaging	0.96
R9715:Ngef	UTSW	1	87,431,010 (GRCm39)	missense	probably damaging	0.96
R9721:Ngef	UTSW	1	87,406,857 (GRCm39)	missense	probably damaging	1.00
R9727:Ngef	UTSW	1	87,431,010 (GRCm39)	missense	probably damaging	0.96
R9750:Ngef	UTSW	1	87,431,010 (GRCm39)	missense	probably damaging	0.96
R9771:Ngef	UTSW	1	87,431,010 (GRCm39)	missense	probably damaging	0.96
Z1177:Ngef	UTSW	1	87,410,431 (GRCm39)	missense	possibly damaging	0.80

Predicted Primers

PCR Primer
(F):5'- AACTCACATGACAGGCGTCC -3'
(R):5'- AGCCCAACGACTCTAATTGATAACTG -3'

Sequencing Primer
(F):5'- AGGCGTCCCTGCTACTGAC -3'
(R):5'- CGACTCTAATTGATAACTGTTCTCTG -3'

Posted On

2014-08-25