Mutagenetix > Incidental Mutation

Incidental Mutation 'R1793:Rap1gds1'

201902

Institutional Source

Beutler Lab

Gene Symbol

Rap1gds1

Ensembl Gene

ENSMUSG00000028149

Gene Name

RAP1, GTP-GDP dissociation stimulator 1

Synonyms

GDS1

MMRRC Submission

039823-MU

Accession Numbers

Essential gene?

Possibly essential (E-score: 0.741) question?

Stock #

R1793 (G1)

Quality Score

225

Status

Validated

Chromosome

Chromosomal Location

138925902-139075201 bp(-) (GRCm38)

Type of Mutation

missense

DNA Base Change (assembly)

T to A at 139050553 bp (GRCm38)

Zygosity

Heterozygous

Amino Acid Change

Threonine to Serine at position 14 (T14S)

Ref Sequence

ENSEMBL: ENSMUSP00000143046 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000029796] [ENSMUST00000098574] [ENSMUST00000196106] [ENSMUST00000196280] [ENSMUST00000200396]

AlphaFold

E9Q912

Predicted Effect

probably benign
Transcript: ENSMUST00000029796
AA Change: T14S

PolyPhen 2 Score 0.026 (Sensitivity: 0.95; Specificity: 0.81)

SMART Domains

Protein: ENSMUSP00000029796
Gene: ENSMUSG00000028149
AA Change: T14S

Domain	Start	End	E-Value	Type
ARM	77	118	1.36e-6	SMART
ARM	119	162	7.98e-4	SMART
ARM	297	341	2.4e-7	SMART
ARM	342	382	6.3e1	SMART
ARM	430	470	6.39e-3	SMART

Predicted Effect

probably benign
Transcript: ENSMUST00000098574
AA Change: T14S

PolyPhen 2 Score 0.033 (Sensitivity: 0.95; Specificity: 0.82)

SMART Domains

Protein: ENSMUSP00000096173
Gene: ENSMUSG00000028149
AA Change: T14S

Domain	Start	End	E-Value	Type
ARM	77	118	1.36e-6	SMART
ARM	169	211	1.74e-4	SMART
ARM	346	390	2.4e-7	SMART
ARM	391	431	6.3e1	SMART
ARM	479	519	6.39e-3	SMART

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000195953

Predicted Effect

possibly damaging
Transcript: ENSMUST00000196106
AA Change: T14S

PolyPhen 2 Score 0.944 (Sensitivity: 0.80; Specificity: 0.95)

Predicted Effect

possibly damaging
Transcript: ENSMUST00000196280
AA Change: T14S

PolyPhen 2 Score 0.861 (Sensitivity: 0.83; Specificity: 0.93)

SMART Domains

Protein: ENSMUSP00000143181
Gene: ENSMUSG00000028149
AA Change: T14S

Domain	Start	End	E-Value	Type
ARM	77	118	1.36e-6	SMART
ARM	169	211	1.74e-4	SMART
ARM	346	390	2.4e-7	SMART
ARM	391	431	6.3e1	SMART
ARM	478	518	6.39e-3	SMART

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000198538

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000199152

Predicted Effect

probably benign
Transcript: ENSMUST00000200396
AA Change: T14S

PolyPhen 2 Score 0.048 (Sensitivity: 0.94; Specificity: 0.83)

SMART Domains

Protein: ENSMUSP00000143517
Gene: ENSMUSG00000028149
AA Change: T14S

Domain	Start	End	E-Value	Type
ARM	77	118	6.7e-9	SMART
ARM	119	162	3.9e-6	SMART
ARM	297	341	1.2e-9	SMART
ARM	342	382	3.1e-1	SMART
ARM	430	470	3.1e-5	SMART

Meta Mutation Damage Score

0.0665

Coding Region Coverage

1x: 97.5%
3x: 96.9%
10x: 95.4%
20x: 92.9%

Validation Efficiency

100% (122/122)

MGI Phenotype

FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] The smg GDP dissociation stimulator (smgGDS) protein is a stimulatory GDP/GTP exchange protein with GTPase activity (Riess et al., 1993 [PubMed 8262526]).[supplied by OMIM, Feb 2010]

Allele List at MGI

Other mutations in this stock

Total: 118 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
4930522L14Rik	A	T	5: 109,736,278	H571Q	probably damaging	Het
Abcf2	T	A	5: 24,568,776	M372L	probably benign	Het
Acaca	A	C	11: 84,315,969	T1552P	probably damaging	Het
Acaca	A	G	11: 84,338,393	D1682G	probably damaging	Het
Acvr1b	T	C	15: 101,194,025	V62A	probably benign	Het
Aimp1	C	T	3: 132,674,064	V97M	probably benign	Het
Aldh1l1	C	T	6: 90,577,831	T557I	possibly damaging	Het
Alpk1	T	C	3: 127,677,798	T1012A	probably damaging	Het
Amot	G	A	X: 145,450,589		probably benign	Het
Arap1	T	A	7: 101,388,622	H477Q	probably benign	Het
Arhgap18	T	A	10: 26,860,736		probably benign	Het
Arhgef10l	C	T	4: 140,515,373	V862M	probably damaging	Het
Arl4d	A	G	11: 101,666,728	I27V	probably benign	Het
Asb18	G	A	1: 90,014,555	P8L	probably damaging	Het
Ash1l	A	G	3: 89,070,309	H2682R	probably damaging	Het
Aspm	T	A	1: 139,457,341	V241E	probably benign	Het
Atf7ip	G	T	6: 136,609,219		probably benign	Het
AY358078	T	G	14: 51,804,594	M142R	unknown	Het
C3	T	A	17: 57,219,592	K796N	possibly damaging	Het
Cd3eap	T	C	7: 19,357,979	T68A	possibly damaging	Het
Ceacam16	T	C	7: 19,856,116	T301A	probably damaging	Het
Ceacam5	T	G	7: 17,747,395	Y356D	probably benign	Het
Cep192	C	T	18: 67,851,767	A1616V	possibly damaging	Het
Cherp	A	T	8: 72,463,150	H645Q	probably benign	Het
CK137956	T	C	4: 127,951,449	D167G	probably benign	Het
Clcn1	T	A	6: 42,298,926		probably null	Het
Cntn1	C	T	15: 92,291,671	T625I	possibly damaging	Het
Cpn2	T	A	16: 30,259,324	N520Y	probably damaging	Het
Crocc	G	A	4: 141,019,309	R1762W	probably damaging	Het
Cts3	C	A	13: 61,568,153	V100F	probably benign	Het
Ddx56	A	T	11: 6,266,934	V87D	probably damaging	Het
Dnah9	C	T	11: 66,119,594		probably null	Het
Dock1	T	A	7: 135,098,727		probably null	Het
Dst	T	A	1: 34,152,471	Y291*	probably null	Het
Eif4g3	T	C	4: 138,171,131	I1071T	probably damaging	Het
Fblim1	T	C	4: 141,595,238	Q78R	probably damaging	Het
Fcamr	C	T	1: 130,811,547	P195S	probably benign	Het
Fcho1	G	A	8: 71,709,022	Q835*	probably null	Het
Frem3	A	G	8: 80,613,112	N678S	probably benign	Het
Frk	G	A	10: 34,607,882	R413H	probably benign	Het
Gm10619	C	A	7: 73,810,010		noncoding transcript	Het
Gm12185	G	A	11: 48,915,756	R203*	probably null	Het
Gm12886	A	G	4: 121,422,977	V34A	probably benign	Het
Gna12	A	T	5: 140,760,952	I246N	probably damaging	Het
Gpm6a	T	C	8: 55,054,832	M201T	probably benign	Het
Gpsm2	T	G	3: 108,700,909	D220A	probably benign	Het
Grip2	C	G	6: 91,783,642	V325L	probably benign	Het
Grk5	C	A	19: 61,076,762	A288D	probably damaging	Het
Herpud2	G	A	9: 25,110,657	A231V	possibly damaging	Het
Hmcn1	T	C	1: 150,749,083	S1024G	probably benign	Het
Hp1bp3	A	G	4: 138,230,509	D295G	probably damaging	Het
Igsf21	T	C	4: 140,034,392	H325R	probably damaging	Het
Ing2	T	A	8: 47,669,329	L61F	probably damaging	Het
Jak3	T	C	8: 71,685,946		probably benign	Het
Kcnn3	T	A	3: 89,609,405	C374S	probably benign	Het
Klk1b22	A	G	7: 44,116,351		probably benign	Het
Larp1	T	C	11: 58,049,938	M630T	possibly damaging	Het
Lhx5	T	A	5: 120,434,660	C115S	probably damaging	Het
Lmcd1	C	A	6: 112,328,751	T271K	probably benign	Het
Lpar1	G	A	4: 58,486,798	R158*	probably null	Het
Lyst	T	A	13: 13,647,083	C1347*	probably null	Het
Maats1	T	A	16: 38,321,419	N384Y	possibly damaging	Het
Map3k8	G	A	18: 4,332,389	Q441*	probably null	Het
Mboat1	T	C	13: 30,219,650	V144A	probably damaging	Het
Mcur1	C	T	13: 43,560,015	G38S	unknown	Het
Med13	T	A	11: 86,329,351	M276L	probably benign	Het
Mefv	A	G	16: 3,708,664	S699P	possibly damaging	Het
Mfsd4a	C	A	1: 132,059,339	A62S	probably damaging	Het
Mmp27	A	G	9: 7,571,458	M1V	probably null	Het
Myo1c	C	T	11: 75,657,589	T58I	probably damaging	Het
Myom3	A	T	4: 135,810,755	D1316V	probably benign	Het
Naa25	T	A	5: 121,417,415	C235S	possibly damaging	Het
Naa25	C	A	5: 121,420,593	R333S	probably damaging	Het
Nav3	G	A	10: 109,703,372	T2056I	probably benign	Het
Nol4	A	G	18: 22,769,821	Y378H	probably damaging	Het
Npat	G	A	9: 53,552,289	R124Q	probably damaging	Het
Npr3	T	A	15: 11,848,579	E434V	probably benign	Het
Nptx2	A	G	5: 144,548,320	T208A	probably benign	Het
Obscn	C	T	11: 59,077,780	V2798M	probably damaging	Het
Olfr1406	A	T	1: 173,184,409	H8Q	probably benign	Het
Olfr1484	C	T	19: 13,585,415	T37I	probably benign	Het
Olfr569	A	G	7: 102,888,043	Y37H	probably benign	Het
Padi1	G	A	4: 140,814,656	P652S	probably damaging	Het
Pcdh1	G	T	18: 38,198,885	P355Q	probably damaging	Het
Pck2	G	A	14: 55,543,965	R189H	possibly damaging	Het
Pcsk5	T	A	19: 17,454,750	K1500N	possibly damaging	Het
Phc3	A	T	3: 30,948,716	S218T	probably damaging	Het
Piezo2	T	A	18: 63,106,284	M510L	possibly damaging	Het
Ppp1r3a	A	T	6: 14,754,718	Y177N	probably damaging	Het
Psme2b	A	T	11: 48,945,534	D195E	probably damaging	Het
Ptprr	T	C	10: 116,252,922	V463A	probably damaging	Het
Pwwp2b	G	A	7: 139,256,365	R574Q	probably damaging	Het
Rbm11	A	T	16: 75,600,797	K205M	probably damaging	Het
Rfx1	T	A	8: 84,066,421		probably benign	Het
Rnasel	C	A	1: 153,754,423	H228Q	probably damaging	Het
Sap130	T	A	18: 31,698,587	I710K	probably benign	Het
Slc27a4	C	A	2: 29,805,721	D89E	probably benign	Het
Spata31d1b	T	C	13: 59,715,965	V309A	probably benign	Het
Syt7	T	G	19: 10,443,990	Y420D	probably damaging	Het
Tanc2	A	G	11: 105,625,033		probably null	Het
Tbc1d10b	A	G	7: 127,203,758	S333P	possibly damaging	Het
Tenm2	G	A	11: 36,023,382	P2442S	probably damaging	Het
Tenm3	C	T	8: 48,674,544	C33Y	probably damaging	Het
Timmdc1	A	G	16: 38,499,057	L245P	possibly damaging	Het
Tlr5	T	C	1: 182,972,447	F5L	probably benign	Het
Ttc25	C	A	11: 100,569,853		probably null	Het
Ttll4	T	A	1: 74,687,840	F784L	possibly damaging	Het
Tulp4	A	G	17: 6,139,112	T70A	possibly damaging	Het
Txndc17	T	A	11: 72,208,745	N81K	probably benign	Het
Ubr3	C	T	2: 70,000,551		probably benign	Het
Uri1	A	C	7: 37,981,691	V96G	probably damaging	Het
Uspl1	T	A	5: 149,213,436	I482N	probably damaging	Het
Vmn1r229	A	G	17: 20,814,712	N73S	possibly damaging	Het
Vwa7	G	T	17: 35,024,412	G689*	probably null	Het
Zfp114	T	A	7: 24,177,739		probably null	Het
Zfp618	A	G	4: 63,133,237	S659G	probably damaging	Het
Zfp872	A	G	9: 22,200,053	K275R	probably damaging	Het
Zzef1	C	T	11: 72,886,709	P1789S	probably damaging	Het

Other mutations in Rap1gds1

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL00825:Rap1gds1	APN	3	138983827	missense	possibly damaging	0.95
IGL01314:Rap1gds1	APN	3	139050561	missense	probably damaging	1.00
IGL01450:Rap1gds1	APN	3	138965920	missense	probably damaging	1.00
IGL02033:Rap1gds1	APN	3	138955471	splice site	probably benign
IGL02658:Rap1gds1	APN	3	138957479	missense	probably damaging	1.00
IGL02745:Rap1gds1	APN	3	138956241	missense	probably damaging	1.00
IGL02880:Rap1gds1	APN	3	138945756	missense	probably benign	0.16
PIT4305001:Rap1gds1	UTSW	3	138956300	missense	probably benign	0.05
R0006:Rap1gds1	UTSW	3	138983871	splice site	probably null
R0006:Rap1gds1	UTSW	3	138983871	splice site	probably null
R0585:Rap1gds1	UTSW	3	139021872	missense	probably benign	0.16
R1573:Rap1gds1	UTSW	3	138965863	splice site	probably null
R1960:Rap1gds1	UTSW	3	139050556	missense	probably null	0.28
R2432:Rap1gds1	UTSW	3	138956250	missense	probably damaging	0.99
R2697:Rap1gds1	UTSW	3	138983721	critical splice donor site	probably null
R3792:Rap1gds1	UTSW	3	138965960	missense	probably damaging	1.00
R4031:Rap1gds1	UTSW	3	139050592	splice site	probably benign
R4194:Rap1gds1	UTSW	3	138959090	missense	probably damaging	1.00
R4530:Rap1gds1	UTSW	3	138957425	missense	probably damaging	1.00
R4696:Rap1gds1	UTSW	3	138927614	missense	probably damaging	1.00
R4909:Rap1gds1	UTSW	3	138983748	missense	possibly damaging	0.77
R5000:Rap1gds1	UTSW	3	138956250	missense	probably damaging	1.00
R5046:Rap1gds1	UTSW	3	138955420	nonsense	probably null
R5152:Rap1gds1	UTSW	3	138956201	missense	probably damaging	1.00
R5163:Rap1gds1	UTSW	3	138959056	missense	probably damaging	0.99
R5309:Rap1gds1	UTSW	3	138958628	missense	probably damaging	1.00
R5312:Rap1gds1	UTSW	3	138958628	missense	probably damaging	1.00
R5782:Rap1gds1	UTSW	3	138959079	missense	possibly damaging	0.65
R5825:Rap1gds1	UTSW	3	138955375	missense	possibly damaging	0.93
R6547:Rap1gds1	UTSW	3	138955338	missense	probably damaging	1.00
R7227:Rap1gds1	UTSW	3	138957467	missense	probably damaging	1.00
R7228:Rap1gds1	UTSW	3	138957467	missense	probably damaging	1.00
R7574:Rap1gds1	UTSW	3	138956215	nonsense	probably null
R7711:Rap1gds1	UTSW	3	138959113	missense	probably benign	0.08
R8035:Rap1gds1	UTSW	3	139015550	missense	probably damaging	1.00
R8432:Rap1gds1	UTSW	3	138941787	missense	probably damaging	0.99
R8736:Rap1gds1	UTSW	3	138941751	missense	probably benign	0.00
R8768:Rap1gds1	UTSW	3	138941760	missense	probably benign	0.00
R8901:Rap1gds1	UTSW	3	138957544	missense	probably damaging	1.00
R9008:Rap1gds1	UTSW	3	138955416	missense	probably benign	0.05
R9526:Rap1gds1	UTSW	3	139050556	missense	probably benign	0.00
RF053:Rap1gds1	UTSW	3	138941657	frame shift	probably null
Z1177:Rap1gds1	UTSW	3	139050539	missense	probably benign

Predicted Primers

PCR Primer
(F):5'- GGAGAGAACACTGCAAACAATTTC -3'
(R):5'- AGTAACTCAGGGCCACTTGG -3'

Sequencing Primer
(F):5'- GATCCAAAAGCATACAAGCTATGTG -3'
(R):5'- TCAGGGCCACTTGGAGTGTC -3'

Posted On

2014-06-23