Mutagenetix > Incidental Mutation

Incidental Mutation 'R0201:Cog5'

23660

Institutional Source

Beutler Lab

Gene Symbol

Cog5

Ensembl Gene

ENSMUSG00000035933

Gene Name

component of oligomeric golgi complex 5

Synonyms

5430405C01Rik, GOLTC1, GTC90

MMRRC Submission

038458-MU

Accession Numbers

Essential gene?

Probably essential (E-score: 0.873) question?

Stock #

R0201 (G1)

Quality Score

225

Status

Validated

Chromosome

Chromosomal Location

31654869-31937630 bp(+) (GRCm38)

Type of Mutation

missense

DNA Base Change (assembly)

A to G at 31839841 bp (GRCm38)

Zygosity

Heterozygous

Amino Acid Change

Lysine to Arginine at position 521 (K521R)

Ref Sequence

ENSEMBL: ENSMUSP00000044797 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000036862]

AlphaFold

Q8C0L8

Predicted Effect

probably damaging
Transcript: ENSMUST00000036862
AA Change: K521R

PolyPhen 2 Score 0.985 (Sensitivity: 0.74; Specificity: 0.96)

SMART Domains

Protein: ENSMUSP00000044797
Gene: ENSMUSG00000035933
AA Change: K521R

Domain	Start	End	E-Value	Type
low complexity region	9	23	N/A	INTRINSIC
Pfam:COG5	35	158	3.8e-37	PFAM
Pfam:Vps51	37	120	1.8e-12	PFAM

Meta Mutation Damage Score

0.1664

Coding Region Coverage

1x: 99.1%
3x: 98.4%
10x: 96.7%
20x: 94.2%

Validation Efficiency

97% (91/94)

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 one of eight proteins (Cog1-8) which form a Golgi-localized complex (COG) required for normal Golgi morphology and function. The encoded protein is organized with conserved oligomeric Golgi complex components 6, 7 and 8 into a sub-complex referred to as lobe B. Alternative splicing results in multiple transcript variants. Mutations in this gene result in congenital disorder of glycosylation type 2I.[provided by RefSeq, Jan 2011]

Allele List at MGI

All alleles(99) : Gene trapped(99)

Other mutations in this stock

Total: 87 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
Adamdec1	A	G	14: 68,581,957 (GRCm38)		probably null	Het
Adamts16	T	A	13: 70,779,644 (GRCm38)	Q492L	possibly damaging	Het
Aplnr	A	G	2: 85,137,177 (GRCm38)	D182G	probably damaging	Het
Arnt2	G	T	7: 84,361,659 (GRCm38)	S3*	probably null	Het
Asxl3	T	C	18: 22,523,154 (GRCm38)	V1407A	probably benign	Het
Atg13	A	T	2: 91,684,762 (GRCm38)		probably null	Het
Atm	A	T	9: 53,454,279 (GRCm38)		probably benign	Het
Birc6	T	G	17: 74,609,327 (GRCm38)	V1746G	possibly damaging	Het
Cbln1	G	T	8: 87,472,113 (GRCm38)	T43K	probably benign	Het
Cbx5	T	C	15: 103,199,700 (GRCm38)	T173A	probably damaging	Het
Cc2d2a	A	G	5: 43,737,512 (GRCm38)	Y1437C	probably damaging	Het
Ccdc78	C	A	17: 25,789,236 (GRCm38)		probably benign	Het
Cd2bp2	A	G	7: 127,193,828 (GRCm38)	Y341H	probably damaging	Het
Cdhr5	T	A	7: 141,276,378 (GRCm38)	D88V	probably damaging	Het
Ces1f	T	A	8: 93,267,329 (GRCm38)	T275S	probably null	Het
Clca4a	T	C	3: 144,960,717 (GRCm38)	N458S	probably benign	Het
Csf2ra	T	A	19: 61,225,568 (GRCm38)	T305S	probably benign	Het
Csmd3	T	A	15: 47,619,729 (GRCm38)		probably benign	Het
Cts6	T	A	13: 61,201,499 (GRCm38)	R132*	probably null	Het
D5Ertd579e	G	T	5: 36,616,465 (GRCm38)	N195K	probably damaging	Het
Ddx1	A	G	12: 13,223,808 (GRCm38)	V606A	probably damaging	Het
Dip2b	G	A	15: 100,186,147 (GRCm38)	D884N	probably damaging	Het
Ehhadh	A	G	16: 21,773,493 (GRCm38)		probably null	Het
Enpp1	T	A	10: 24,653,917 (GRCm38)	T608S	probably benign	Het
Fancm	T	C	12: 65,101,632 (GRCm38)	Y674H	probably damaging	Het
Fat4	T	A	3: 38,891,596 (GRCm38)	V1546D	probably damaging	Het
Fsd1	G	A	17: 55,990,522 (GRCm38)	A158T	probably benign	Het
Fzd2	T	A	11: 102,606,122 (GRCm38)	M464K	probably damaging	Het
Gjc2	A	G	11: 59,177,590 (GRCm38)	F22S	possibly damaging	Het
Gm13101	T	C	4: 143,964,890 (GRCm38)	E421G	probably damaging	Het
Gria2	T	C	3: 80,707,838 (GRCm38)	Y445C	probably damaging	Het
Hsdl1	T	A	8: 119,566,256 (GRCm38)	I147F	possibly damaging	Het
Ifi44	T	C	3: 151,745,636 (GRCm38)	Y226C	probably damaging	Het
Il16	A	G	7: 83,722,308 (GRCm38)	C97R	probably damaging	Het
Impg1	A	T	9: 80,345,561 (GRCm38)	S369T	probably damaging	Het
Jmjd1c	A	G	10: 67,219,109 (GRCm38)	T390A	unknown	Het
Lgi1	A	G	19: 38,301,293 (GRCm38)	E269G	possibly damaging	Het
Lrp6	G	T	6: 134,450,897 (GRCm38)	Y1577*	probably null	Het
Lrrc74a	G	T	12: 86,761,773 (GRCm38)		probably benign	Het
Man1c1	A	T	4: 134,640,398 (GRCm38)		probably null	Het
Map1lc3b	A	C	8: 121,590,550 (GRCm38)	Q9P	possibly damaging	Het
Mboat1	G	A	13: 30,202,375 (GRCm38)	R124H	probably benign	Het
Mcu	A	G	10: 59,456,677 (GRCm38)	L60P	probably damaging	Het
Mrs2	G	T	13: 25,018,534 (GRCm38)	Q75K	probably benign	Het
Muc2	CGTG	CGTGTG	7: 141,699,185 (GRCm38)		probably null	Het
Neb	G	A	2: 52,206,878 (GRCm38)		probably benign	Het
Nlrp2	C	T	7: 5,328,329 (GRCm38)	G356D	probably benign	Het
Notch3	A	G	17: 32,156,148 (GRCm38)		probably benign	Het
Npr2	A	C	4: 43,641,617 (GRCm38)	S474R	probably damaging	Het
Nupl1	A	G	14: 60,244,616 (GRCm38)	F100L	probably benign	Het
Osbpl6	A	C	2: 76,546,042 (GRCm38)	D87A	possibly damaging	Het
Pabpc2	A	T	18: 39,775,307 (GRCm38)	M542L	probably benign	Het
Papln	A	G	12: 83,783,027 (GRCm38)		probably benign	Het
Parpbp	T	C	10: 88,092,896 (GRCm38)	I561V	possibly damaging	Het
Pcdhb13	C	T	18: 37,442,581 (GRCm38)	A4V	probably benign	Het
Pelp1	T	C	11: 70,395,704 (GRCm38)	T533A	possibly damaging	Het
Poldip3	T	A	15: 83,135,296 (GRCm38)	M182L	probably benign	Het
Por	T	C	5: 135,731,178 (GRCm38)	S240P	possibly damaging	Het
Pramef20	A	T	4: 144,377,273 (GRCm38)		probably benign	Het
Prss22	A	T	17: 23,996,301 (GRCm38)	V167D	probably damaging	Het
Prss37	A	C	6: 40,516,349 (GRCm38)	L61R	probably damaging	Het
Psmd1	C	T	1: 86,118,616 (GRCm38)	T702M	probably benign	Het
Pxdn	G	T	12: 30,002,431 (GRCm38)	G869V	possibly damaging	Het
Rabgap1l	A	G	1: 160,453,745 (GRCm38)		probably benign	Het
Rapgef6	T	C	11: 54,619,941 (GRCm38)	V228A	probably damaging	Het
Rnf169	T	C	7: 99,926,003 (GRCm38)	R462G	possibly damaging	Het
Rnft2	A	G	5: 118,194,680 (GRCm38)		probably benign	Het
Sgo2b	T	C	8: 63,926,636 (GRCm38)	D1054G	probably benign	Het
Sh3bgr	T	C	16: 96,228,517 (GRCm38)		probably benign	Het
Slc12a4	A	G	8: 105,945,350 (GRCm38)	V910A	possibly damaging	Het
Slc6a12	A	T	6: 121,355,372 (GRCm38)	I222F	probably benign	Het
Spty2d1	G	A	7: 46,997,901 (GRCm38)	R427*	probably null	Het
Ssc5d	A	G	7: 4,944,663 (GRCm38)	T1339A	probably benign	Het
Sspo	A	C	6: 48,455,752 (GRCm38)	E854A	possibly damaging	Het
Stx7	A	G	10: 24,185,079 (GRCm38)		probably benign	Het
Styk1	A	T	6: 131,301,730 (GRCm38)		probably benign	Het
Tex33	T	A	15: 78,378,828 (GRCm38)	M209L	probably damaging	Het
Tmem163	T	G	1: 127,668,637 (GRCm38)		probably benign	Het
Tmppe	C	CT	9: 114,404,639 (GRCm38)		probably null	Het
Tmx2	A	G	2: 84,673,082 (GRCm38)	V229A	probably benign	Het
Top2b	T	C	14: 16,383,174 (GRCm38)	L54P	probably damaging	Het
Trim62	A	T	4: 128,902,550 (GRCm38)	Y280F	probably benign	Het
Tssk4	A	T	14: 55,651,559 (GRCm38)	K181*	probably null	Het
Tssk4	A	T	14: 55,651,560 (GRCm38)	K181M	probably damaging	Het
Ubn1	A	G	16: 5,064,614 (GRCm38)	D313G	probably damaging	Het
Ugt1a10	C	T	1: 88,218,249 (GRCm38)	P473L	probably damaging	Het
Ugt1a10	C	T	1: 88,215,123 (GRCm38)	P113L	probably damaging	Het

Other mutations in Cog5

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL00433:Cog5	APN	12	31,685,704 (GRCm38)	missense	probably damaging	1.00
IGL00495:Cog5	APN	12	31,837,309 (GRCm38)	missense	probably benign	0.06
IGL00763:Cog5	APN	12	31,665,532 (GRCm38)	splice site	probably benign
IGL00789:Cog5	APN	12	31,760,952 (GRCm38)	missense	possibly damaging	0.95
IGL01288:Cog5	APN	12	31,886,206 (GRCm38)	missense	probably benign	0.13
IGL01315:Cog5	APN	12	31,760,986 (GRCm38)	splice site	probably benign
IGL01396:Cog5	APN	12	31,894,096 (GRCm38)	missense	probably benign	0.01
IGL02468:Cog5	APN	12	31,837,358 (GRCm38)	critical splice donor site	probably null
IGL03030:Cog5	APN	12	31,790,922 (GRCm38)	missense	probably damaging	0.99
IGL03346:Cog5	APN	12	31,894,038 (GRCm38)	missense	possibly damaging	0.88
R0356:Cog5	UTSW	12	31,837,181 (GRCm38)	splice site	probably benign
R0492:Cog5	UTSW	12	31,869,461 (GRCm38)	missense	probably damaging	1.00
R0646:Cog5	UTSW	12	31,837,359 (GRCm38)	splice site	probably benign
R0971:Cog5	UTSW	12	31,919,678 (GRCm38)	missense	probably benign	0.11
R1158:Cog5	UTSW	12	31,870,057 (GRCm38)	splice site	probably benign
R1997:Cog5	UTSW	12	31,660,849 (GRCm38)	missense	possibly damaging	0.66
R2167:Cog5	UTSW	12	31,837,289 (GRCm38)	missense	probably damaging	0.99
R4414:Cog5	UTSW	12	31,660,854 (GRCm38)	nonsense	probably null
R4755:Cog5	UTSW	12	31,869,406 (GRCm38)	splice site	probably null
R4836:Cog5	UTSW	12	31,919,733 (GRCm38)	missense	probably benign	0.07
R5017:Cog5	UTSW	12	31,920,605 (GRCm38)	missense	probably benign	0.29
R5256:Cog5	UTSW	12	31,886,205 (GRCm38)	missense	probably benign
R5986:Cog5	UTSW	12	31,660,717 (GRCm38)	missense	probably benign	0.03
R6131:Cog5	UTSW	12	31,886,221 (GRCm38)	missense	possibly damaging	0.47
R6885:Cog5	UTSW	12	31,894,199 (GRCm38)	missense	probably damaging	1.00
R7056:Cog5	UTSW	12	31,665,469 (GRCm38)	missense	possibly damaging	0.65
R7177:Cog5	UTSW	12	31,760,889 (GRCm38)	missense	probably damaging	1.00
R7182:Cog5	UTSW	12	31,685,708 (GRCm38)	missense	probably damaging	1.00
R7418:Cog5	UTSW	12	31,833,241 (GRCm38)	missense	probably damaging	1.00
R7445:Cog5	UTSW	12	31,919,672 (GRCm38)	missense	possibly damaging	0.64
R7585:Cog5	UTSW	12	31,760,889 (GRCm38)	missense	probably damaging	1.00
R8332:Cog5	UTSW	12	31,833,223 (GRCm38)	nonsense	probably null
R8722:Cog5	UTSW	12	31,919,704 (GRCm38)	missense	possibly damaging	0.82
R8781:Cog5	UTSW	12	31,833,250 (GRCm38)	missense	probably damaging	1.00
R8911:Cog5	UTSW	12	31,833,239 (GRCm38)	missense	probably damaging	1.00
R8979:Cog5	UTSW	12	31,790,895 (GRCm38)	missense	probably benign	0.00
R9153:Cog5	UTSW	12	31,660,811 (GRCm38)	missense	possibly damaging	0.87
X0062:Cog5	UTSW	12	31,685,692 (GRCm38)	missense	probably benign	0.01
Z1177:Cog5	UTSW	12	31,801,985 (GRCm38)	missense	probably damaging	1.00

Predicted Primers

PCR Primer
(F):5'- GTTCTTGGAAGCAGTGAGCAAAAGC -3'
(R):5'- ATCTGATTGCCTACAAACAGCTCCC -3'

Sequencing Primer
(F):5'- TGAGCAAAAGCTATATAAAGACTCAG -3'
(R):5'- TAATTACCACTGTGGGCCAG -3'

Posted On

2013-04-16