Mutagenetix > Incidental Mutation

Incidental Mutation 'R8677:Comp'

661450

Institutional Source

Beutler Lab

Gene Symbol

Comp

Ensembl Gene

ENSMUSG00000031849

Gene Name

cartilage oligomeric matrix protein

Synonyms

TSP5, thrombospondin-5

MMRRC Submission

068532-MU

Accession Numbers

Essential gene?

Possibly non essential (E-score: 0.291) question?

Stock #

R8677 (G1)

Quality Score

225.009

Status

Not validated

Chromosome

Chromosomal Location

70826208-70834716 bp(+) (GRCm39)

Type of Mutation

missense

DNA Base Change (assembly)

A to T at 70832910 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Asparagine to Tyrosine at position 623 (N623Y)

Ref Sequence

ENSEMBL: ENSMUSP00000003659 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000003659] [ENSMUST00000076615]

AlphaFold

Q9R0G6

PDB Structure

Storage function of COMP:the crystal structure of the coiled-coil domain in complex with vitamin D3 [X-RAY DIFFRACTION]
COMPcc in complex with fatty acids [X-RAY DIFFRACTION]
COMPcc in complex with fatty acids [X-RAY DIFFRACTION]
COMPcc in complex with fatty acids [X-RAY DIFFRACTION]
COMPcc in complex with fatty acids [X-RAY DIFFRACTION]

Predicted Effect

probably damaging
Transcript: ENSMUST00000003659
AA Change: N623Y

PolyPhen 2 Score 1.000 (Sensitivity: 0.00; Specificity: 1.00)

SMART Domains

Protein: ENSMUSP00000003659
Gene: ENSMUSG00000031849
AA Change: N623Y

Domain	Start	End	E-Value	Type
signal peptide	1	21	N/A	INTRINSIC
Pfam:COMP	28	72	6.2e-22	PFAM
EGF	88	124	8.19e-2	SMART
EGF_CA	125	177	5.08e-7	SMART
EGF_CA	178	220	1.73e-9	SMART
EGF	226	265	7.53e-1	SMART
Pfam:TSP_3	299	334	6.1e-16	PFAM
Pfam:TSP_3	358	393	1.2e-15	PFAM
Pfam:TSP_3	393	416	2.7e-6	PFAM
Pfam:TSP_3	417	454	1.6e-14	PFAM
Pfam:TSP_3	455	490	3.7e-14	PFAM
Pfam:TSP_3	491	526	6.1e-15	PFAM
Pfam:TSP_C	544	741	2.6e-101	PFAM

Predicted Effect

probably benign
Transcript: ENSMUST00000076615

SMART Domains

Protein: ENSMUSP00000075916
Gene: ENSMUSG00000003575

Domain	Start	End	E-Value	Type
Pfam:TORC_N	6	66	1.1e-26	PFAM
Pfam:TORC_M	148	289	4.8e-64	PFAM
low complexity region	359	394	N/A	INTRINSIC
Pfam:TORC_C	555	630	9.2e-36	PFAM

Predicted Effect

probably benign
Transcript: ENSMUST00000213072

Coding Region Coverage

1x: 100.0%
3x: 100.0%
10x: 99.8%
20x: 99.4%

Validation Efficiency

MGI Phenotype

FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] The protein encoded by this gene is a noncollagenous extracellular matrix (ECM) protein. It consists of five identical glycoprotein subunits, each with EGF-like and calcium-binding (thrombospondin-like) domains. Oligomerization results from formation of a five-stranded coiled coil and disulfides. Binding to other ECM proteins such as collagen appears to depend on divalent cations. Contraction or expansion of a 5 aa aspartate repeat and other mutations can cause pseudochondroplasia (PSACH) and multiple epiphyseal dysplasia (MED). [provided by RefSeq, Jul 2016]
PHENOTYPE: Mice homozygous for a targeted null mutation are indistinguishable from controls. Mice homozygous for a knockin allele with two point mutations exhibit short limb dwarfism, osteoarthritis, abnormal chondrocytes, mild myopathy, and abnormal tendon morphology and stiffness. [provided by MGI curators]

Allele List at MGI

Other mutations in this stock

Total: 64 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
Acd	A	C	8: 106,427,576 (GRCm39)	S25R	probably damaging	Het
Acly	A	T	11: 100,410,569 (GRCm39)	H136Q	probably damaging	Het
Adrm1	C	T	2: 179,813,832 (GRCm39)	T2M	probably benign	Het
Ankrd12	A	T	17: 66,331,209 (GRCm39)	L246M	probably damaging	Het
Bltp2	C	T	11: 78,174,982 (GRCm39)	R1706C	probably damaging	Het
Cacnb3	T	C	15: 98,539,931 (GRCm39)	L258P	probably damaging	Het
Cd36	C	T	5: 18,025,493 (GRCm39)	V76M	probably damaging	Het
Cep120	A	G	18: 53,871,633 (GRCm39)	F80L	possibly damaging	Het
Clcn1	A	T	6: 42,267,519 (GRCm39)		probably null	Het
Col17a1	T	C	19: 47,640,240 (GRCm39)	T1042A	probably benign	Het
Ctnnal1	A	G	4: 56,813,272 (GRCm39)	L653P	probably benign	Het
Cx3cl1	G	T	8: 95,506,443 (GRCm39)	R149S	probably benign	Het
Dbndd2	T	A	2: 164,330,522 (GRCm39)	N58K	probably damaging	Het
Dclk1	A	G	3: 55,409,840 (GRCm39)	I595V	probably damaging	Het
Dhx15	T	C	5: 52,341,886 (GRCm39)	D144G	probably benign	Het
Dlat	T	C	9: 50,570,007 (GRCm39)	E120G	probably damaging	Het
Fam171a1	T	A	2: 3,221,352 (GRCm39)	Y273N	probably damaging	Het
Fndc3b	A	T	3: 27,511,176 (GRCm39)	V778D	probably benign	Het
Grn	T	C	11: 102,324,393 (GRCm39)	S129P	possibly damaging	Het
Grxcr1	T	C	5: 68,267,757 (GRCm39)	F169L	possibly damaging	Het
Hcn2	A	G	10: 79,560,619 (GRCm39)	I317V	probably benign	Het
Heca	T	C	10: 17,791,424 (GRCm39)	N211D	probably benign	Het
Htr1f	T	C	16: 64,746,414 (GRCm39)	T293A	possibly damaging	Het
Ifitm10	T	A	7: 141,909,749 (GRCm39)	I116F	probably benign	Het
Itprid1	A	G	6: 55,849,579 (GRCm39)	H37R	probably benign	Het
Ivl	A	T	3: 92,479,986 (GRCm39)	D26E	probably benign	Het
Kcnma1	T	A	14: 23,436,418 (GRCm39)	E761V	probably benign	Het
Ltbp1	G	T	17: 75,655,753 (GRCm39)	V923F	probably benign	Het
Mfsd4b2	A	T	10: 39,799,805 (GRCm39)	F32L	probably benign	Het
Micu2	T	C	14: 58,161,420 (GRCm39)	R301G	possibly damaging	Het
Miip	C	T	4: 147,947,503 (GRCm39)	C219Y	probably damaging	Het
Mn1	T	A	5: 111,566,885 (GRCm39)	L285*	probably null	Het
Mthfd1l	T	A	10: 3,998,250 (GRCm39)	N664K	possibly damaging	Het
Mttp	A	T	3: 137,810,437 (GRCm39)	H659Q	probably benign	Het
Myadml2	G	A	11: 120,538,815 (GRCm39)	P7S	probably benign	Het
Nlgn3	T	C	X: 100,352,390 (GRCm39)	V179A	probably damaging	Het
Nlrp4c	C	T	7: 6,075,644 (GRCm39)	T645I	probably damaging	Het
Notch1	C	T	2: 26,359,936 (GRCm39)	V1260I	probably damaging	Het
Numa1	T	C	7: 101,650,148 (GRCm39)	L1293P	probably damaging	Het
Or1a1	A	T	11: 74,086,415 (GRCm39)	I29F	probably benign	Het
Or56a4	A	G	7: 104,806,775 (GRCm39)	L38P	probably benign	Het
Pcdh12	G	T	18: 38,415,191 (GRCm39)	H645N	probably benign	Het
Pdcd1	A	T	1: 93,968,952 (GRCm39)	L122H	probably damaging	Het
Pknox2	G	A	9: 36,821,887 (GRCm39)	P246L	probably damaging	Het
Polr2a	A	T	11: 69,626,381 (GRCm39)	S1590T	possibly damaging	Het
Ppp1r16b	G	A	2: 158,593,098 (GRCm39)	D226N	probably damaging	Het
Proser1	A	G	3: 53,385,122 (GRCm39)	T335A	probably benign	Het
Ptprc	A	G	1: 138,011,335 (GRCm39)	I598T	probably damaging	Het
Rasal3	T	C	17: 32,615,828 (GRCm39)	T337A	probably benign	Het
Rasgrp3	A	T	17: 75,819,055 (GRCm39)	T415S	probably benign	Het
Rbm7	T	A	9: 48,401,273 (GRCm39)	R152*	probably null	Het
Sanbr	T	C	11: 23,545,471 (GRCm39)	D474G	probably benign	Het
Sf3b2	C	T	19: 5,336,257 (GRCm39)	R513H	probably damaging	Het
Slc22a30	A	G	19: 8,364,035 (GRCm39)	S214P	probably benign	Het
Spam1	A	G	6: 24,796,984 (GRCm39)	T312A	probably benign	Het
Ssh2	A	G	11: 77,346,019 (GRCm39)	T1335A	possibly damaging	Het
Tef	T	A	15: 81,699,169 (GRCm39)	L59Q	probably damaging	Het
Tmem131l	A	C	3: 83,836,009 (GRCm39)	V700G	probably damaging	Het
Twsg1	A	G	17: 66,233,402 (GRCm39)	S183P	probably damaging	Het
Unc13c	T	C	9: 73,840,243 (GRCm39)	T203A	probably benign	Het
Uqcc6	G	T	10: 82,456,050 (GRCm39)	T37K	possibly damaging	Het
Vmn2r75	G	T	7: 85,814,410 (GRCm39)	P361Q	possibly damaging	Het
Xirp2	A	T	2: 67,346,978 (GRCm39)	N3073I	probably damaging	Het
Zfp114	A	G	7: 23,880,070 (GRCm39)	N140D	probably benign	Het

Other mutations in Comp

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL01596:Comp	APN	8	70,831,285 (GRCm39)	missense	probably damaging	1.00
IGL02110:Comp	APN	8	70,826,289 (GRCm39)	missense	probably benign	0.08
IGL02721:Comp	APN	8	70,828,731 (GRCm39)	missense	probably damaging	1.00
IGL02812:Comp	APN	8	70,829,337 (GRCm39)	missense	possibly damaging	0.75
IGL03023:Comp	APN	8	70,831,260 (GRCm39)	unclassified	probably benign
BB007:Comp	UTSW	8	70,826,503 (GRCm39)	missense	probably damaging	1.00
BB017:Comp	UTSW	8	70,826,503 (GRCm39)	missense	probably damaging	1.00
IGL03047:Comp	UTSW	8	70,827,559 (GRCm39)	missense	possibly damaging	0.65
R0217:Comp	UTSW	8	70,831,558 (GRCm39)	missense	probably damaging	1.00
R0503:Comp	UTSW	8	70,828,384 (GRCm39)	missense	possibly damaging	0.58
R0659:Comp	UTSW	8	70,831,751 (GRCm39)	missense	possibly damaging	0.84
R1490:Comp	UTSW	8	70,826,563 (GRCm39)	missense	possibly damaging	0.63
R1663:Comp	UTSW	8	70,826,250 (GRCm39)	missense	possibly damaging	0.93
R1666:Comp	UTSW	8	70,831,607 (GRCm39)	splice site	probably null
R1668:Comp	UTSW	8	70,831,607 (GRCm39)	splice site	probably null
R1789:Comp	UTSW	8	70,829,796 (GRCm39)	missense	probably benign	0.01
R2096:Comp	UTSW	8	70,828,713 (GRCm39)	missense	probably damaging	1.00
R2157:Comp	UTSW	8	70,832,220 (GRCm39)	nonsense	probably null
R3836:Comp	UTSW	8	70,826,509 (GRCm39)	missense	probably benign	0.26
R4630:Comp	UTSW	8	70,827,032 (GRCm39)	missense	possibly damaging	0.94
R4743:Comp	UTSW	8	70,828,711 (GRCm39)	missense	probably damaging	1.00
R4747:Comp	UTSW	8	70,829,352 (GRCm39)	missense	probably damaging	1.00
R5028:Comp	UTSW	8	70,829,290 (GRCm39)	missense	probably damaging	0.99
R5070:Comp	UTSW	8	70,829,145 (GRCm39)	missense	probably benign	0.25
R5083:Comp	UTSW	8	70,833,950 (GRCm39)	missense	probably damaging	1.00
R5917:Comp	UTSW	8	70,829,011 (GRCm39)	splice site	probably null
R6705:Comp	UTSW	8	70,829,387 (GRCm39)	missense	probably damaging	0.98
R6965:Comp	UTSW	8	70,829,164 (GRCm39)	missense	probably damaging	1.00
R7309:Comp	UTSW	8	70,826,328 (GRCm39)	splice site	probably null
R7402:Comp	UTSW	8	70,829,854 (GRCm39)	missense	probably benign	0.01
R7501:Comp	UTSW	8	70,832,059 (GRCm39)	missense	possibly damaging	0.82
R7541:Comp	UTSW	8	70,834,000 (GRCm39)	missense	probably damaging	1.00
R7568:Comp	UTSW	8	70,826,509 (GRCm39)	missense	probably benign	0.26
R7930:Comp	UTSW	8	70,826,503 (GRCm39)	missense	probably damaging	1.00
R8103:Comp	UTSW	8	70,833,936 (GRCm39)	missense	probably damaging	1.00
R8259:Comp	UTSW	8	70,831,704 (GRCm39)	missense	probably damaging	1.00
R8271:Comp	UTSW	8	70,829,110 (GRCm39)	missense	probably damaging	1.00
R9273:Comp	UTSW	8	70,831,285 (GRCm39)	missense	probably damaging	1.00
R9355:Comp	UTSW	8	70,828,699 (GRCm39)	missense	probably benign	0.30
R9557:Comp	UTSW	8	70,829,854 (GRCm39)	missense	probably benign	0.01
Z1177:Comp	UTSW	8	70,829,871 (GRCm39)	missense	probably benign	0.06

Predicted Primers

PCR Primer
(F):5'- AAGCATGCTTCTGGAGACC -3'
(R):5'- ATTTAACCCCGTGGCAATGG -3'

Sequencing Primer
(F):5'- ATGCTTCTGGAGACCCCCTTC -3'
(R):5'- CCCGTGGCAATGGTGGTG -3'

Posted On

2021-03-08