Mutagenetix > Incidental Mutation

Incidental Mutation 'R4823:Tulp1'

371334

Institutional Source

Beutler Lab

Gene Symbol

Tulp1

Ensembl Gene

ENSMUSG00000037446

Gene Name

tubby like protein 1

Synonyms

Tulp1l

MMRRC Submission

042439-MU

Accession Numbers

Is this an essential gene?

Possibly non essential (E-score: 0.384) question?

Stock #

R4823 (G1)

Quality Score

225

Status

Validated

Chromosome

Chromosomal Location

28351515-28365182 bp(-) (GRCm38)

Type of Mutation

missense

DNA Base Change (assembly)

A to T at 28353572 bp (GRCm38)

Zygosity

Heterozygous

Amino Acid Change

Aspartic acid to Glutamic Acid at position 229 (D229E)

Ref Sequence

ENSEMBL: ENSMUSP00000116588 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000041819] [ENSMUST00000114794] [ENSMUST00000114799] [ENSMUST00000123797] [ENSMUST00000129375] [ENSMUST00000154873] [ENSMUST00000156862]

AlphaFold

Q9Z273

Predicted Effect

probably benign
Transcript: ENSMUST00000041819

SMART Domains

Protein: ENSMUSP00000049070
Gene: ENSMUSG00000037446

Domain	Start	End	E-Value	Type
internal_repeat_1	17	65	8.47e-7	PROSPERO
low complexity region	111	142	N/A	INTRINSIC
low complexity region	144	158	N/A	INTRINSIC
internal_repeat_1	160	212	8.47e-7	PROSPERO
coiled coil region	242	266	N/A	INTRINSIC
Pfam:Tub	299	537	1.8e-82	PFAM

Predicted Effect

probably benign
Transcript: ENSMUST00000114794

SMART Domains

Protein: ENSMUSP00000110442
Gene: ENSMUSG00000037446

Domain	Start	End	E-Value	Type
internal_repeat_1	17	65	8.5e-7	PROSPERO
low complexity region	111	142	N/A	INTRINSIC
low complexity region	144	158	N/A	INTRINSIC
internal_repeat_1	160	212	8.5e-7	PROSPERO
coiled coil region	242	266	N/A	INTRINSIC
Pfam:Tub	299	449	3.4e-59	PFAM

Predicted Effect

probably benign
Transcript: ENSMUST00000114799

SMART Domains

Protein: ENSMUSP00000110447
Gene: ENSMUSG00000002249

Domain	Start	End	E-Value	Type
low complexity region	8	19	N/A	INTRINSIC
TEA	52	123	9.04e-52	SMART
low complexity region	150	165	N/A	INTRINSIC
low complexity region	181	202	N/A	INTRINSIC
low complexity region	208	222	N/A	INTRINSIC
low complexity region	227	244	N/A	INTRINSIC
PDB:3KYS\|C	248	465	1e-120	PDB

Predicted Effect

probably benign
Transcript: ENSMUST00000123797
AA Change: D229E

PolyPhen 2 Score 0.006 (Sensitivity: 0.97; Specificity: 0.75)

SMART Domains

Protein: ENSMUSP00000116588
Gene: ENSMUSG00000037446
AA Change: D229E

Domain	Start	End	E-Value	Type
Pfam:Tub	21	228	2.1e-88	PFAM

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000127212

Predicted Effect

probably benign
Transcript: ENSMUST00000129375

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000130877

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000131604

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000140250

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000142143

Predicted Effect

probably benign
Transcript: ENSMUST00000148188

SMART Domains

Protein: ENSMUSP00000116844
Gene: ENSMUSG00000037446

Domain	Start	End	E-Value	Type
Pfam:Tub	5	214	8.8e-76	PFAM

Predicted Effect

probably benign
Transcript: ENSMUST00000154873

SMART Domains

Protein: ENSMUSP00000118582
Gene: ENSMUSG00000002249

Domain	Start	End	E-Value	Type
Pfam:TEA	1	366	3.8e-149	PFAM

Predicted Effect

probably benign
Transcript: ENSMUST00000156862

SMART Domains

Protein: ENSMUSP00000115443
Gene: ENSMUSG00000002249

Domain	Start	End	E-Value	Type
Pfam:TEA	1	366	3.8e-149	PFAM

Meta Mutation Damage Score

0.0898

Coding Region Coverage

1x: 99.1%
3x: 98.5%
10x: 96.8%
20x: 94.1%

Validation Efficiency

98% (96/98)

MGI Phenotype

FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] This gene encodes a member of the tubby-like gene family (TULPs). Members of this family have been identified in plants, vertebrates, and invertebrates. TULP proteins share a conserved C-terminal region of approximately 200 amino acid residues. The protein encoded by this gene is thought to play a role in the physiology of photoreceptors. Mutations in this gene are associated with recessive juvenile retinitis pigmentosa and Leber congenital amaurosis-15. [provided by RefSeq, Nov 2016]
PHENOTYPE: Homozygous mutant mice exhibit retinal degeneration. [provided by MGI curators]

Allele List at MGI

Other mutations in this stock

Total: 88 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
2310003L06Rik	G	A	5: 87,972,598	D405N	probably benign	Het
4921517D22Rik	T	G	13: 59,690,904	E38A	probably damaging	Het
4930433I11Rik	A	T	7: 40,993,362	I152F	probably benign	Het
5830473C10Rik	T	A	5: 90,566,503	L124H	probably benign	Het
Aass	A	T	6: 23,107,691	D364E	probably benign	Het
Adamts2	A	G	11: 50,737,187	D238G	probably benign	Het
Aplf	G	A	6: 87,646,255	L302F	probably damaging	Het
Apol7b	G	T	15: 77,427,782		probably benign	Het
Arhgef12	A	G	9: 43,020,696	V165A	probably benign	Het
Ascc3	T	C	10: 50,713,233	S1017P	probably damaging	Het
B230104I21Rik	T	A	4: 154,349,747		probably benign	Het
Bfsp2	C	A	9: 103,479,883	C115F	probably damaging	Het
Bhmt2	A	T	13: 93,663,290	W213R	probably benign	Het
C87499	T	C	4: 88,629,215	K160R	probably damaging	Het
Capn5	A	T	7: 98,126,441	V431E	probably damaging	Het
Ccdc88c	A	G	12: 100,930,543	Y1390H	probably damaging	Het
Ccr3	A	G	9: 124,028,681	T18A	probably damaging	Het
Cdh5	T	C	8: 104,142,669	S676P	probably benign	Het
Ceacam5	A	G	7: 17,757,744	T680A	possibly damaging	Het
Cebpd	G	A	16: 15,888,114	G264S	probably benign	Het
Cfd	T	C	10: 79,890,948	V8A	probably benign	Het
Cops9	C	T	1: 92,641,866		probably benign	Het
Cpne6	T	C	14: 55,517,010	Y533H	probably damaging	Het
Cyp2c67	T	A	19: 39,615,724	H396L	probably benign	Het
Cyp2j9	G	A	4: 96,568,735	P500S	possibly damaging	Het
Cyp4a12a	A	T	4: 115,327,413		probably null	Het
Dbt	G	A	3: 116,523,387	D71N	probably damaging	Het
Ddx41	G	T	13: 55,532,055	Q440K	probably benign	Het
Doxl2	A	G	6: 48,975,261	D40G	probably damaging	Het
Elovl4	A	G	9: 83,780,685	F174S	probably damaging	Het
Emcn	C	G	3: 137,423,426	P193R	probably damaging	Het
Etnk1	T	C	6: 143,167,638		probably null	Het
Fads3	A	C	19: 10,041,888	S53R	probably damaging	Het
Fam193a	A	G	5: 34,459,028	E849G	probably damaging	Het
Fat3	A	G	9: 15,996,507	V2733A	probably benign	Het
Frem3	T	A	8: 80,613,958	M960K	probably benign	Het
Frmd6	A	T	12: 70,872,575	I62L	probably benign	Het
Glmp	T	C	3: 88,325,223		probably benign	Het
Gm17421	T	C	12: 113,369,541		noncoding transcript	Het
Gm27013	T	A	6: 130,522,223		noncoding transcript	Het
Gtf2ird1	A	G	5: 134,395,722	V390A	probably damaging	Het
Hps3	A	G	3: 20,012,726	Y559H	probably benign	Het
Hsh2d	G	A	8: 72,200,460	D229N	probably benign	Het
Itpr3	A	G	17: 27,085,147	D114G	probably benign	Het
Jmjd4	G	A	11: 59,455,580	A408T	probably benign	Het
Kcnh4	G	T	11: 100,755,174	A316D	probably damaging	Het
Klrg1	T	A	6: 122,273,533		probably null	Het
Lancl2	T	A	6: 57,732,277	Y355N	probably damaging	Het
Ltb	T	C	17: 35,195,230	S115P	probably benign	Het
Mccc2	T	G	13: 100,000,254	R64S	probably benign	Het
Mgam2-ps	T	A	6: 40,832,662		noncoding transcript	Het
Mrrf	T	G	2: 36,148,030	N104K	possibly damaging	Het
Nipa1	C	A	7: 55,979,688	V226L	possibly damaging	Het
Numa1	T	A	7: 101,996,037	L290Q	probably damaging	Het
Ofcc1	T	A	13: 40,280,473	H52L	probably damaging	Het
Ogfod3	G	A	11: 121,195,201	A189V	probably benign	Het
Olfr1176	A	G	2: 88,339,835	D90G	probably damaging	Het
Olfr1444	A	T	19: 12,861,816	I14F	probably benign	Het
Olfr1505	G	A	19: 13,919,658	V213I	probably benign	Het
Olfr292	T	A	7: 86,694,588	I44N	probably damaging	Het
P2ry12	G	A	3: 59,217,897	S119L	probably benign	Het
Pde7b	T	A	10: 20,438,785	N192Y	probably damaging	Het
Pfkl	T	C	10: 77,997,594	N258S	probably damaging	Het
Phykpl	G	A	11: 51,586,593	A71T	probably damaging	Het
Ppp1r16a	T	C	15: 76,693,193		probably benign	Het
Pramef20	T	C	4: 144,373,211	N328S	possibly damaging	Het
Prune2	C	T	19: 17,120,504	T1124M	probably damaging	Het
Rapgef6	A	G	11: 54,694,500	I1570V	probably benign	Het
Rbm34	T	C	8: 126,970,905	S19G	probably benign	Het
Rnf10	T	C	5: 115,255,442		probably null	Het
Rnf34	A	G	5: 122,850,302		probably null	Het
Setd4	A	G	16: 93,589,950	S287P	probably benign	Het
Shc3	C	T	13: 51,451,570	V225I	probably benign	Het
Sipa1l3	C	T	7: 29,371,002	V1030I	probably damaging	Het
Siva1	G	T	12: 112,645,064	R33L	probably damaging	Het
Slc4a5	C	T	6: 83,272,133	T573I	probably damaging	Het
Sorcs1	C	T	19: 50,678,140	R110Q	possibly damaging	Het
Sorcs1	T	C	19: 50,230,302	I581V	possibly damaging	Het
Sorl1	T	C	9: 41,992,321	D1545G	probably damaging	Het
Tas2r124	T	G	6: 132,755,546	S273A	probably damaging	Het
Tcf15	T	C	2: 152,143,893	F90L	probably damaging	Het
Trim59	G	A	3: 69,037,120	R296C	probably benign	Het
Ush1c	T	A	7: 46,195,733	N886I	probably benign	Het
Usp9y	A	T	Y: 1,444,559	S127T	probably damaging	Het
Vmn1r19	T	A	6: 57,405,234	Y257*	probably null	Het
Vmn2r109	A	T	17: 20,553,891	Y401N	probably damaging	Het
Vmn2r69	A	C	7: 85,411,300	S359A	probably benign	Het
Zfp37	A	T	4: 62,191,503	N479K	probably benign	Het

Other mutations in Tulp1

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL01952:Tulp1	APN	17	28356424	missense	probably damaging	1.00
IGL01955:Tulp1	APN	17	28356424	missense	probably damaging	1.00
IGL02388:Tulp1	APN	17	28358659	missense	probably damaging	1.00
IGL02511:Tulp1	APN	17	28356168	missense	probably benign	0.15
IGL02973:Tulp1	APN	17	28358542	splice site	probably benign
IGL03054:Tulp1	APN	17	28359313	unclassified	probably benign
IGL03248:Tulp1	APN	17	28359324	missense	possibly damaging	0.87
BB006:Tulp1	UTSW	17	28353772	missense	possibly damaging	0.87
BB016:Tulp1	UTSW	17	28353772	missense	possibly damaging	0.87
R1017:Tulp1	UTSW	17	28364303	missense	probably damaging	1.00
R1543:Tulp1	UTSW	17	28362671	unclassified	probably benign
R1593:Tulp1	UTSW	17	28362701	missense	probably damaging	0.97
R1826:Tulp1	UTSW	17	28356367	missense	possibly damaging	0.89
R2323:Tulp1	UTSW	17	28362482	missense	probably damaging	1.00
R3840:Tulp1	UTSW	17	28353715	missense	probably damaging	1.00
R3841:Tulp1	UTSW	17	28353715	missense	probably damaging	1.00
R3930:Tulp1	UTSW	17	28353709	missense	probably damaging	1.00
R4690:Tulp1	UTSW	17	28351837	unclassified	probably benign
R4916:Tulp1	UTSW	17	28359135	missense	probably damaging	1.00
R5024:Tulp1	UTSW	17	28351995	nonsense	probably null
R5159:Tulp1	UTSW	17	28359060	critical splice donor site	probably null
R5249:Tulp1	UTSW	17	28362677	unclassified	probably benign
R5567:Tulp1	UTSW	17	28359198	missense	possibly damaging	0.47
R6072:Tulp1	UTSW	17	28363784	missense	possibly damaging	0.71
R6127:Tulp1	UTSW	17	28356150	missense	probably benign
R6207:Tulp1	UTSW	17	28358677	unclassified	probably benign
R6416:Tulp1	UTSW	17	28356031	makesense	probably null
R6773:Tulp1	UTSW	17	28362902	missense	probably damaging	1.00
R7242:Tulp1	UTSW	17	28363405	splice site	probably null
R7323:Tulp1	UTSW	17	28356424	missense	probably damaging	1.00
R7542:Tulp1	UTSW	17	28363755	missense	probably benign	0.26
R7929:Tulp1	UTSW	17	28353772	missense	possibly damaging	0.87
R8195:Tulp1	UTSW	17	28364326	missense	probably benign	0.00
R8546:Tulp1	UTSW	17	28363736	missense	probably benign	0.03
R8930:Tulp1	UTSW	17	28364494	missense	probably benign	0.37
R8932:Tulp1	UTSW	17	28364494	missense	probably benign	0.37
R9292:Tulp1	UTSW	17	28363764	nonsense	probably null
R9593:Tulp1	UTSW	17	28353828	nonsense	probably null
X0024:Tulp1	UTSW	17	28353697	missense	probably damaging	1.00

Predicted Primers

PCR Primer
(F):5'- GTCCCTGCTCTTAAAGGACAATC -3'
(R):5'- GAAGACAGTGGCTCCTACAC -3'

Sequencing Primer
(F):5'- GGACAATCCTCTATTTTAGCAGGGC -3'
(R):5'- GTGGCTCCTACACCCTCAAC -3'

Posted On

2016-03-01