Mutagenetix > Incidental Mutation

Incidental Mutation 'R0049:Raph1'

40841

Institutional Source

Beutler Lab

Gene Symbol

Raph1

Ensembl Gene

ENSMUSG00000026014

Gene Name

Ras association (RalGDS/AF-6) and pleckstrin homology domains 1

Synonyms

C730009O10Rik, Lpd, 9430025M21Rik, lamellipodin

MMRRC Submission

038343-MU

Accession Numbers

Essential gene?

Probably non essential (E-score: 0.120) question?

Stock #

R0049 (G1)

Quality Score

225

Status

Validated

Chromosome

Chromosomal Location

60482292-60567104 bp(-) (GRCm38)

Type of Mutation

missense

DNA Base Change (assembly)

G to T at 60525899 bp (GRCm38)

Zygosity

Heterozygous

Amino Acid Change

Threonine to Lysine at position 143 (T143K)

Ref Sequence

ENSEMBL: ENSMUSP00000027168 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000027168] [ENSMUST00000090293] [ENSMUST00000140485] [ENSMUST00000142258]

AlphaFold

F2Z3U3

Predicted Effect

probably benign
Transcript: ENSMUST00000027168
AA Change: T143K

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

SMART Domains

Protein: ENSMUSP00000027168
Gene: ENSMUSG00000026014
AA Change: T143K

Domain	Start	End	E-Value	Type
low complexity region	201	218	N/A	INTRINSIC
low complexity region	294	308	N/A	INTRINSIC
RA	322	408	1.63e-13	SMART
PH	450	560	3.38e-11	SMART
low complexity region	581	604	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000090293
AA Change: T143K

PolyPhen 2 Score 0.007 (Sensitivity: 0.96; Specificity: 0.75)

SMART Domains

Protein: ENSMUSP00000087763
Gene: ENSMUSG00000026014
AA Change: T143K

Domain	Start	End	E-Value	Type
low complexity region	201	218	N/A	INTRINSIC
low complexity region	294	308	N/A	INTRINSIC
RA	322	408	1.63e-13	SMART
PH	450	560	3.38e-11	SMART
low complexity region	581	604	N/A	INTRINSIC

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000122243

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000127573

SMART Domains

Protein: ENSMUSP00000114596
Gene: ENSMUSG00000026014

Domain	Start	End	E-Value	Type
low complexity region	201	218	N/A	INTRINSIC
coiled coil region	295	320	N/A	INTRINSIC
RA	322	408	1e-15	SMART
PH	450	560	1.6e-13	SMART
low complexity region	581	604	N/A	INTRINSIC
low complexity region	656	661	N/A	INTRINSIC

Predicted Effect

unknown
Transcript: ENSMUST00000140485
AA Change: T143K

SMART Domains

Protein: ENSMUSP00000121023
Gene: ENSMUSG00000026014
AA Change: T143K

Domain	Start	End	E-Value	Type
low complexity region	201	218	N/A	INTRINSIC
low complexity region	245	256	N/A	INTRINSIC
RA	270	356	1.63e-13	SMART
PH	398	508	3.38e-11	SMART
low complexity region	529	552	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000142258
AA Change: T143K

PolyPhen 2 Score 0.008 (Sensitivity: 0.96; Specificity: 0.76)

SMART Domains

Protein: ENSMUSP00000120638
Gene: ENSMUSG00000026014
AA Change: T143K

Domain	Start	End	E-Value	Type
low complexity region	202	212	N/A	INTRINSIC

Meta Mutation Damage Score

0.0898

Coding Region Coverage

1x: 99.7%
3x: 98.9%
10x: 97.0%
20x: 94.3%

Validation Efficiency

99% (114/115)

MGI Phenotype

FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] This gene encodes a protein that belongs to the Mig10/Rap1-interacting adaptor molecule/Lamellipodin family of adapter proteins, which function in cell migration. Members of this family contain pleckstrin-homology domains, Ras-association domains, and proline-rich C-termini. The protein encoded by this gene regulates actin dynamics through interaction with Ena/Vasodilator proteins as well as direct binding to filamentous actin to regulate actin network assembly. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jul 2016]
PHENOTYPE: Mice homozygous for a conditional allele activated in all cells exhibit background sensitive neonatal or postnatal lethality, decreased body size, belly spotting and decreased melanocyte numbers in the trunk. [provided by MGI curators]

Allele List at MGI

Other mutations in this stock

Total: 110 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
A2m	A	T	6: 121,638,308	H9L	possibly damaging	Het
Aars	T	A	8: 111,052,451	I739K	possibly damaging	Het
Abcb1b	T	A	5: 8,825,661	H611Q	probably damaging	Het
Acod1	T	A	14: 103,055,207	I389K	possibly damaging	Het
Adgre1	T	A	17: 57,402,841	L166*	probably null	Het
Akap1	C	A	11: 88,839,624		probably null	Het
Akna	T	A	4: 63,394,635	Q417L	probably damaging	Het
Anxa7	T	C	14: 20,462,610	D285G	probably damaging	Het
Arhgap1	T	C	2: 91,670,169	Y308H	probably damaging	Het
Arhgef10	A	C	8: 14,954,446	R360S	probably damaging	Het
Arhgef11	T	A	3: 87,729,193		probably null	Het
Arid3a	A	G	10: 79,931,065	T58A	possibly damaging	Het
Atp6v0a4	G	A	6: 38,082,081	R256C	probably damaging	Het
Camsap3	C	A	8: 3,598,772	S163R	probably benign	Het
Ccdc110	A	T	8: 45,942,626	E518V	probably damaging	Het
Ccdc180	G	A	4: 45,930,119		probably null	Het
Ccnt1	T	C	15: 98,565,079	M71V	probably benign	Het
Celsr2	T	A	3: 108,397,254	Y2263F	probably benign	Het
Cfap36	A	T	11: 29,246,514		probably null	Het
Cfap69	T	C	5: 5,613,734	T498A	probably benign	Het
Chadl	T	C	15: 81,694,012	D6G	probably benign	Het
Clstn3	T	A	6: 124,459,853	I132F	possibly damaging	Het
Cnot4	A	G	6: 35,051,277	V468A	probably benign	Het
Crmp1	T	G	5: 37,265,273	D141E	possibly damaging	Het
Crtc1	A	G	8: 70,391,859		probably null	Het
Cryz	C	A	3: 154,611,552	A136D	probably damaging	Het
Dph6	A	G	2: 114,523,044	V221A	probably benign	Het
Dst	A	T	1: 34,275,781	N4267Y	probably damaging	Het
Duox2	T	A	2: 122,296,686	D170V	possibly damaging	Het
Ecm2	A	T	13: 49,524,446	K403*	probably null	Het
Eif3d	T	C	15: 77,959,724	N474S	probably benign	Het
Elf1	T	C	14: 79,565,525	L106P	probably damaging	Het
Exoc4	G	C	6: 33,296,922		probably null	Het
F12	T	C	13: 55,426,317	D34G	probably benign	Het
Fam214b	A	T	4: 43,036,441	S97T	probably benign	Het
Fam228b	A	T	12: 4,748,117	F200Y	probably damaging	Het
Fgl2	T	A	5: 21,375,663	D334E	possibly damaging	Het
Fras1	T	A	5: 96,776,622	F3641I	probably benign	Het
Gabrb2	T	G	11: 42,593,847	Y244D	probably damaging	Het
Gcc1	A	T	6: 28,421,269	D16E	probably benign	Het
Gga3	C	A	11: 115,587,089	G558*	probably null	Het
Glt1d1	T	C	5: 127,663,327		probably benign	Het
Gm6614	T	C	6: 141,990,421	T313A	probably benign	Het
Gorasp2	T	C	2: 70,690,723	S346P	possibly damaging	Het
Hcn4	T	C	9: 58,860,299	S1048P	probably damaging	Het
Henmt1	T	A	3: 108,953,789		probably benign	Het
Htt	A	C	5: 34,908,662	K3060N	probably damaging	Het
Ibsp	C	T	5: 104,302,158	L8F	probably damaging	Het
Kif27	A	T	13: 58,303,564	D983E	probably damaging	Het
Kif3a	T	A	11: 53,590,733		probably benign	Het
Kif3c	A	C	12: 3,367,090	K370N	possibly damaging	Het
Loxhd1	T	C	18: 77,380,560		probably benign	Het
Maz	A	T	7: 127,024,586	D74E	probably damaging	Het
Med21	T	C	6: 146,650,234	S128P	probably damaging	Het
Mms19	A	C	19: 41,955,168	M374R	probably damaging	Het
Mprip	T	C	11: 59,766,745	V801A	probably damaging	Het
Mrpl3	T	C	9: 105,055,673	V111A	probably benign	Het
Mtfr2	T	A	10: 20,348,412	Y31N	probably damaging	Het
Myh3	C	T	11: 67,099,672	R1677C	probably damaging	Het
Mynn	T	A	3: 30,607,081	*61K	probably null	Het
Neb	A	C	2: 52,170,467	M2286R	possibly damaging	Het
Ngf	A	T	3: 102,520,345	R137*	probably null	Het
Nr1i3	T	A	1: 171,214,413	V22E	probably damaging	Het
Nxpe5	T	C	5: 138,251,304	V452A	probably damaging	Het
Oas1e	C	A	5: 120,795,330	A57S	probably benign	Het
Olfr116	T	A	17: 37,624,133	R167S	probably benign	Het
Olfr1458	G	A	19: 13,103,278	R3C	possibly damaging	Het
Olfr743	A	T	14: 50,533,694	K94M	probably damaging	Het
Pax3	A	G	1: 78,103,504	L415P	probably damaging	Het
Pcnt	G	T	10: 76,369,821		probably benign	Het
Peg3	G	T	7: 6,711,673	D183E	possibly damaging	Het
Pglyrp1	G	T	7: 18,889,388	G120V	probably damaging	Het
Pnp2	T	A	14: 50,959,533	Y25*	probably null	Het
Pomt1	T	A	2: 32,252,011	H584Q	possibly damaging	Het
Ppp1r12a	A	G	10: 108,253,332	N611D	possibly damaging	Het
Prkcq	G	A	2: 11,283,832	G532E	probably benign	Het
Prl6a1	A	T	13: 27,317,997	I116F	probably damaging	Het
Ptprh	T	A	7: 4,573,362	T300S	possibly damaging	Het
Pwp1	A	G	10: 85,885,616	T361A	possibly damaging	Het
Rab4a	A	T	8: 123,827,342	H5L	probably damaging	Het
Raet1e	C	A	10: 22,180,862	H112Q	possibly damaging	Het
Ramp1	T	C	1: 91,196,870	I51T	possibly damaging	Het
Rhpn1	A	G	15: 75,709,239	E110G	possibly damaging	Het
Rnf168	A	T	16: 32,298,469	T283S	possibly damaging	Het
Ros1	T	A	10: 52,101,761	Y1463F	possibly damaging	Het
Rtn4ip1	A	G	10: 43,921,434	Q223R	probably null	Het
Rtp4	G	T	16: 23,612,929	M70I	probably benign	Het
Sag	C	A	1: 87,834,618	T335K	probably damaging	Het
Satb1	T	A	17: 51,740,346	Q647L	probably benign	Het
Sec31b	T	C	19: 44,520,408		probably benign	Het
Sgo1	C	T	17: 53,679,663	D167N	probably damaging	Het
Smchd1	T	C	17: 71,431,236	I545V	probably benign	Het
St6gal1	G	T	16: 23,321,141	A21S	probably damaging	Het
Stard9	C	A	2: 120,699,819	L2186I	probably damaging	Het
Sun2	T	A	15: 79,727,609		probably benign	Het
Taf4	G	A	2: 179,924,091	T849M	probably damaging	Het
Tdrd5	A	T	1: 156,301,903	I79N	probably damaging	Het
Tdrd7	A	G	4: 45,987,582	I72V	probably damaging	Het
Tnxb	T	A	17: 34,709,568	V2652E	possibly damaging	Het
Trim30a	C	T	7: 104,429,352		probably null	Het
Tshz3	A	G	7: 36,770,109	T508A	probably damaging	Het
Ttc21b	A	G	2: 66,223,564	L757P	probably damaging	Het
Ubtd2	A	C	11: 32,499,223		probably null	Het
Ubtd2	G	T	11: 32,499,224		probably null	Het
Vmn1r218	C	T	13: 23,137,055	Q111*	probably null	Het
Vmn2r75	G	A	7: 86,148,101	Q835*	probably null	Het
Vwa8	T	A	14: 79,093,739	M1229K	probably benign	Het
Wdr76	C	T	2: 121,519,451	R111C	probably damaging	Het
Xcr1	T	A	9: 123,855,875	D274V	possibly damaging	Het
Ypel5	C	T	17: 72,846,337	T12I	probably benign	Het

Other mutations in Raph1

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL02300:Raph1	APN	1	60525947	missense	possibly damaging	0.76
IGL02900:Raph1	APN	1	60502863	missense	probably damaging	1.00
FR4976:Raph1	UTSW	1	60489267	intron	probably benign
R0048:Raph1	UTSW	1	60500605	missense	probably benign	0.03
R0048:Raph1	UTSW	1	60500605	missense	probably benign	0.03
R0049:Raph1	UTSW	1	60525899	missense	probably benign	0.03
R0227:Raph1	UTSW	1	60525977	missense	probably benign	0.00
R0387:Raph1	UTSW	1	60510496	intron	probably benign
R0607:Raph1	UTSW	1	60525869	missense	probably damaging	1.00
R1740:Raph1	UTSW	1	60519024	nonsense	probably null
R2274:Raph1	UTSW	1	60498500	missense	probably damaging	1.00
R3108:Raph1	UTSW	1	60493386	missense	probably benign	0.01
R3977:Raph1	UTSW	1	60498523	missense	probably benign	0.39
R4260:Raph1	UTSW	1	60502965	missense	possibly damaging	0.94
R4487:Raph1	UTSW	1	60502869	missense	possibly damaging	0.68
R4721:Raph1	UTSW	1	60503001	unclassified	probably benign
R4782:Raph1	UTSW	1	60489114	missense	probably damaging	1.00
R5027:Raph1	UTSW	1	60496277	missense	probably damaging	1.00
R5037:Raph1	UTSW	1	60496222	splice site	probably null
R5106:Raph1	UTSW	1	60533300	missense	probably damaging	1.00
R5506:Raph1	UTSW	1	60493498	intron	probably benign
R5510:Raph1	UTSW	1	60522946	unclassified	probably benign
R5587:Raph1	UTSW	1	60498473	missense	probably damaging	1.00
R5591:Raph1	UTSW	1	60501746	unclassified	probably benign
R5619:Raph1	UTSW	1	60490255	intron	probably benign
R5776:Raph1	UTSW	1	60490156	intron	probably benign
R5802:Raph1	UTSW	1	60488673	missense	possibly damaging	0.81
R6742:Raph1	UTSW	1	60525720	missense	probably damaging	0.97
R7122:Raph1	UTSW	1	60525977	missense	probably benign	0.10
R7219:Raph1	UTSW	1	60502873	missense	unknown
R7251:Raph1	UTSW	1	60489868	missense	unknown
R7254:Raph1	UTSW	1	60499608	missense	unknown
R7732:Raph1	UTSW	1	60533288	missense	possibly damaging	0.82
R7979:Raph1	UTSW	1	60525989	missense	probably benign	0.00
R7986:Raph1	UTSW	1	60496286	missense
R8167:Raph1	UTSW	1	60490111	missense	unknown
R8168:Raph1	UTSW	1	60499620	missense	unknown
R8399:Raph1	UTSW	1	60489318	missense	unknown
R9036:Raph1	UTSW	1	60502965	missense	unknown
R9146:Raph1	UTSW	1	60518978	critical splice donor site	probably null
R9338:Raph1	UTSW	1	60490141	missense	unknown
R9381:Raph1	UTSW	1	60501800	missense	unknown
R9383:Raph1	UTSW	1	60525670	missense	unknown
R9399:Raph1	UTSW	1	60525995	missense	probably benign
R9454:Raph1	UTSW	1	60489594	missense	unknown
R9561:Raph1	UTSW	1	60525728	missense	possibly damaging	0.49
RF018:Raph1	UTSW	1	60489267	intron	probably benign
RF022:Raph1	UTSW	1	60489267	intron	probably benign

Predicted Primers

PCR Primer
(F):5'- TGATGCTTGACCGGGAGGAGTTAC -3'
(R):5'- TCTGAATCAGGGTGAGACTGTGGAC -3'

Sequencing Primer
(F):5'- ACCGGGAGGAGTTACTGATG -3'
(R):5'- AGACTGTGGACCTGGATGC -3'

Posted On

2013-05-23