Mutagenetix > Incidental Mutation

Incidental Mutation 'R5554:Slc5a6'

486861

Institutional Source

Beutler Lab

Gene Symbol

Slc5a6

Ensembl Gene

ENSMUSG00000006641

Gene Name

solute carrier family 5 (sodium-dependent vitamin transporter), member 6

Synonyms

MMRRC Submission

043111-MU

Accession Numbers

Essential gene?

Essential (E-score: 1.000) question?

Stock #

R5554 (G1)

Quality Score

225

Status

Validated

Chromosome

Chromosomal Location

31193380-31206268 bp(-) (GRCm39)

Type of Mutation

missense

DNA Base Change (assembly)

C to A at 31195444 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Alanine to Serine at position 425 (A425S)

Ref Sequence

ENSEMBL: ENSMUSP00000143993 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000080431] [ENSMUST00000114668] [ENSMUST00000200816] [ENSMUST00000202520] [ENSMUST00000202556] [ENSMUST00000202984]

AlphaFold

Q5U4D8

Predicted Effect

probably damaging
Transcript: ENSMUST00000006817
AA Change: A425S

PolyPhen 2 Score 0.981 (Sensitivity: 0.75; Specificity: 0.96)

SMART Domains

Protein: ENSMUSP00000006817
Gene: ENSMUSG00000006641
AA Change: A425S

Domain	Start	End	E-Value	Type
transmembrane domain	23	45	N/A	INTRINSIC
Pfam:SSF	58	462	7.9e-41	PFAM
low complexity region	496	506	N/A	INTRINSIC
transmembrane domain	524	546	N/A	INTRINSIC
low complexity region	562	573	N/A	INTRINSIC

Predicted Effect

probably damaging
Transcript: ENSMUST00000080431
AA Change: A425S

PolyPhen 2 Score 0.981 (Sensitivity: 0.75; Specificity: 0.96)

SMART Domains

Protein: ENSMUSP00000079291
Gene: ENSMUSG00000006641
AA Change: A425S

Domain	Start	End	E-Value	Type
transmembrane domain	23	45	N/A	INTRINSIC
Pfam:SSF	58	462	7.9e-41	PFAM
low complexity region	496	506	N/A	INTRINSIC
transmembrane domain	524	546	N/A	INTRINSIC
low complexity region	562	573	N/A	INTRINSIC

Predicted Effect

probably damaging
Transcript: ENSMUST00000114668
AA Change: A425S

PolyPhen 2 Score 0.981 (Sensitivity: 0.75; Specificity: 0.96)

SMART Domains

Protein: ENSMUSP00000110316
Gene: ENSMUSG00000006641
AA Change: A425S

Domain	Start	End	E-Value	Type
transmembrane domain	23	45	N/A	INTRINSIC
Pfam:SSF	58	462	7.9e-41	PFAM
low complexity region	496	506	N/A	INTRINSIC
transmembrane domain	524	546	N/A	INTRINSIC
low complexity region	562	573	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000200816

SMART Domains

Protein: ENSMUSP00000144665
Gene: ENSMUSG00000006641

Domain	Start	End	E-Value	Type
transmembrane domain	20	42	N/A	INTRINSIC

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000201017

Predicted Effect

probably damaging
Transcript: ENSMUST00000202520
AA Change: A425S

PolyPhen 2 Score 0.981 (Sensitivity: 0.75; Specificity: 0.96)

SMART Domains

Protein: ENSMUSP00000143938
Gene: ENSMUSG00000006641
AA Change: A425S

Domain	Start	End	E-Value	Type
transmembrane domain	23	45	N/A	INTRINSIC
Pfam:SSF	58	462	7.9e-41	PFAM
low complexity region	496	506	N/A	INTRINSIC
transmembrane domain	524	546	N/A	INTRINSIC
low complexity region	562	573	N/A	INTRINSIC

Predicted Effect

probably damaging
Transcript: ENSMUST00000202556
AA Change: A425S

PolyPhen 2 Score 0.981 (Sensitivity: 0.75; Specificity: 0.96)

SMART Domains

Protein: ENSMUSP00000143993
Gene: ENSMUSG00000006641
AA Change: A425S

Domain	Start	End	E-Value	Type
transmembrane domain	23	45	N/A	INTRINSIC
Pfam:SSF	58	462	7.9e-41	PFAM
low complexity region	496	506	N/A	INTRINSIC
transmembrane domain	524	546	N/A	INTRINSIC
low complexity region	562	573	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000202984

SMART Domains

Protein: ENSMUSP00000144349
Gene: ENSMUSG00000006641

Domain	Start	End	E-Value	Type
Pfam:SSF	2	104	6.3e-15	PFAM
transmembrane domain	158	180	N/A	INTRINSIC

Meta Mutation Damage Score

0.5711

Coding Region Coverage

1x: 99.9%
3x: 99.7%
10x: 98.6%
20x: 96.1%

Validation Efficiency

97% (73/75)

Allele List at MGI

Other mutations in this stock

Total: 68 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
Aarsd1	C	A	11: 101,304,807 (GRCm39)	R227L	probably benign	Het
Adamtsl1	A	G	4: 86,195,182 (GRCm39)	Q533R	possibly damaging	Het
Adgb	C	T	10: 10,216,217 (GRCm39)	R1524H	probably damaging	Het
Ank2	A	T	3: 126,792,622 (GRCm39)	N739K	possibly damaging	Het
Ankrd39	C	T	1: 36,581,062 (GRCm39)	G96R	probably damaging	Het
Anxa10	G	A	8: 62,514,080 (GRCm39)	P249L	possibly damaging	Het
Banp	G	A	8: 122,718,334 (GRCm39)	E183K	probably damaging	Het
BC051665	C	G	13: 60,932,435 (GRCm39)	L83F	probably damaging	Het
Btn1a1	A	T	13: 23,643,295 (GRCm39)	F385I	possibly damaging	Het
Chchd4	A	T	6: 91,441,999 (GRCm39)	*140R	probably null	Het
Dcpp2	T	C	17: 24,119,545 (GRCm39)	Y120H	probably damaging	Het
Dlx2	G	A	2: 71,375,805 (GRCm39)	R173C	possibly damaging	Het
Dmbt1	C	A	7: 130,701,030 (GRCm39)	Y1069*	probably null	Het
Dop1a	T	A	9: 86,403,710 (GRCm39)	F1637I	probably damaging	Het
Dusp18	T	C	11: 3,847,202 (GRCm39)	I64T	probably damaging	Het
Evi5l	A	G	8: 4,256,491 (GRCm39)		probably benign	Het
Fiz1	T	C	7: 5,015,849 (GRCm39)	H47R	probably damaging	Het
Fndc3b	G	T	3: 27,697,162 (GRCm39)	P17T	possibly damaging	Het
Foxa1	T	A	12: 57,589,077 (GRCm39)	Q381L	probably benign	Het
Gda	A	G	19: 21,405,837 (GRCm39)		probably null	Het
Gm10044	T	C	14: 7,771,181 (GRCm38)		noncoding transcript	Het
Gm12258	T	A	11: 58,749,294 (GRCm39)	S156R	possibly damaging	Het
Gm973	A	G	1: 59,566,131 (GRCm39)	R117G	probably benign	Het
Grwd1	C	T	7: 45,480,064 (GRCm39)	V48I	probably damaging	Het
Ifi209	T	A	1: 173,468,763 (GRCm39)	S198T	probably benign	Het
Inka2	T	A	3: 105,623,930 (GRCm39)	S82R	possibly damaging	Het
Itga1	A	T	13: 115,129,010 (GRCm39)	C549*	probably null	Het
Kmt2c	C	A	5: 25,499,608 (GRCm39)	G511C	probably damaging	Het
Knstrn	T	C	2: 118,664,444 (GRCm39)		probably benign	Het
Lrp2	T	C	2: 69,382,768 (GRCm39)	Y39C	possibly damaging	Het
Maco1	T	C	4: 134,555,445 (GRCm39)	I343V	probably benign	Het
Micos10	T	C	4: 138,833,218 (GRCm39)		probably benign	Het
N4bp2	T	C	5: 65,965,457 (GRCm39)	Y1169H	probably benign	Het
Nbr1	C	T	11: 101,455,633 (GRCm39)	T129I	probably benign	Het
Or52e8	A	C	7: 104,625,189 (GRCm39)	M1R	probably null	Het
Or5k15	A	T	16: 58,710,169 (GRCm39)	M138K	possibly damaging	Het
Or7g25	T	C	9: 19,160,039 (GRCm39)	I219V	probably benign	Het
Oxct1	T	A	15: 4,120,677 (GRCm39)	F254I	probably benign	Het
Patj	T	A	4: 98,342,633 (GRCm39)	S576T	possibly damaging	Het
Pdxdc1	A	T	16: 13,690,363 (GRCm39)	C202S	probably benign	Het
Pet100	A	T	8: 3,672,381 (GRCm39)	I19F	probably damaging	Het
Pik3r5	T	C	11: 68,385,059 (GRCm39)	Y655H	probably damaging	Het
Pkhd1	A	G	1: 20,151,476 (GRCm39)	S3807P	probably damaging	Het
Ptma	A	G	1: 86,454,649 (GRCm39)	T8A	probably damaging	Het
Ptpn3	G	T	4: 57,240,843 (GRCm39)	N257K	probably damaging	Het
R3hdm1	C	A	1: 128,164,409 (GRCm39)	Q1108K	probably benign	Het
Rimbp2	T	C	5: 128,857,406 (GRCm39)	D815G	probably damaging	Het
Scn10a	A	G	9: 119,523,196 (GRCm39)	F66L	probably benign	Het
Selenot	T	C	3: 58,484,296 (GRCm39)		probably null	Het
Serpinb8	A	G	1: 107,526,705 (GRCm39)	T82A	probably benign	Het
Serpini2	G	A	3: 75,175,295 (GRCm39)		probably benign	Het
Slc1a6	G	T	10: 78,631,816 (GRCm39)	G214V	probably benign	Het
Smo	C	A	6: 29,736,123 (GRCm39)	N38K	possibly damaging	Het
Smtn	A	T	11: 3,470,811 (GRCm39)	C909*	probably null	Het
Sntg2	C	T	12: 30,308,040 (GRCm39)	R215H	probably benign	Het
Stk4	T	A	2: 163,941,645 (GRCm39)	V287E	probably benign	Het
Tdrd7	A	G	4: 46,005,358 (GRCm39)	D388G	possibly damaging	Het
Ttn	A	T	2: 76,642,652 (GRCm39)	F13294L	probably damaging	Het
Ube2j1	T	G	4: 33,040,745 (GRCm39)	F84V	probably damaging	Het
Ugt3a1	A	G	15: 9,370,287 (GRCm39)	Q477R	probably damaging	Het
Utf1	T	C	7: 139,523,859 (GRCm39)	S25P	probably benign	Het
Vmn1r184	A	T	7: 25,966,413 (GRCm39)	H53L	probably damaging	Het
Vmn2r13	A	T	5: 109,339,860 (GRCm39)	N38K	possibly damaging	Het
Vps13a	C	T	19: 16,699,775 (GRCm39)	D756N	probably damaging	Het
Vwa1	G	T	4: 155,857,695 (GRCm39)	D34E	probably damaging	Het
Zfhx2	A	C	14: 55,301,774 (GRCm39)	L2070R	probably damaging	Het
Zfp984	A	G	4: 147,840,362 (GRCm39)	V163A	probably benign	Het
Zp3r	A	T	1: 130,511,208 (GRCm39)	M325K	probably benign	Het

Other mutations in Slc5a6

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL00957:Slc5a6	APN	5	31,196,279 (GRCm39)	unclassified	probably benign
IGL02305:Slc5a6	APN	5	31,195,179 (GRCm39)	missense	probably benign	0.01
IGL02457:Slc5a6	APN	5	31,198,002 (GRCm39)	missense	probably damaging	1.00
IGL02691:Slc5a6	APN	5	31,199,518 (GRCm39)	missense	probably damaging	0.99
IGL02737:Slc5a6	APN	5	31,194,511 (GRCm39)	missense	probably benign	0.01
IGL03277:Slc5a6	APN	5	31,195,372 (GRCm39)	missense	possibly damaging	0.90
IGL03389:Slc5a6	APN	5	31,194,821 (GRCm39)	missense	probably damaging	1.00
Burke	UTSW	5	31,194,228 (GRCm39)	nonsense	probably null
whig	UTSW	5	31,194,155 (GRCm39)	missense	probably damaging	1.00
F5770:Slc5a6	UTSW	5	31,199,957 (GRCm39)	splice site	probably null
R1177:Slc5a6	UTSW	5	31,196,646 (GRCm39)	critical splice donor site	probably null
R1505:Slc5a6	UTSW	5	31,194,455 (GRCm39)	missense	probably benign	0.00
R1680:Slc5a6	UTSW	5	31,199,988 (GRCm39)	missense	probably damaging	1.00
R1800:Slc5a6	UTSW	5	31,198,020 (GRCm39)	nonsense	probably null
R1881:Slc5a6	UTSW	5	31,194,155 (GRCm39)	missense	probably damaging	1.00
R2216:Slc5a6	UTSW	5	31,196,679 (GRCm39)	missense	possibly damaging	0.77
R3803:Slc5a6	UTSW	5	31,200,295 (GRCm39)	missense	probably damaging	1.00
R4250:Slc5a6	UTSW	5	31,195,062 (GRCm39)	missense	probably benign	0.00
R4765:Slc5a6	UTSW	5	31,195,427 (GRCm39)	missense	possibly damaging	0.85
R4821:Slc5a6	UTSW	5	31,194,228 (GRCm39)	nonsense	probably null
R5187:Slc5a6	UTSW	5	31,200,322 (GRCm39)	missense	probably damaging	1.00
R5536:Slc5a6	UTSW	5	31,200,446 (GRCm39)	missense	probably damaging	1.00
R5806:Slc5a6	UTSW	5	31,198,114 (GRCm39)	missense	probably damaging	1.00
R6035:Slc5a6	UTSW	5	31,206,168 (GRCm39)	unclassified	probably benign
R6035:Slc5a6	UTSW	5	31,206,168 (GRCm39)	unclassified	probably benign
R6615:Slc5a6	UTSW	5	31,194,174 (GRCm39)	missense	probably benign
R6621:Slc5a6	UTSW	5	31,198,122 (GRCm39)	missense	probably damaging	0.98
R6983:Slc5a6	UTSW	5	31,197,749 (GRCm39)	missense	probably benign
R7989:Slc5a6	UTSW	5	31,199,480 (GRCm39)	critical splice donor site	probably null
R8433:Slc5a6	UTSW	5	31,194,806 (GRCm39)	missense	possibly damaging	0.54
R9180:Slc5a6	UTSW	5	31,195,190 (GRCm39)	missense	probably damaging	0.97
R9390:Slc5a6	UTSW	5	31,197,803 (GRCm39)	missense	possibly damaging	0.65
R9628:Slc5a6	UTSW	5	31,197,746 (GRCm39)	missense	probably benign	0.00
V7581:Slc5a6	UTSW	5	31,199,957 (GRCm39)	splice site	probably null
X0022:Slc5a6	UTSW	5	31,200,682 (GRCm39)	start codon destroyed	probably null	0.97
Z1176:Slc5a6	UTSW	5	31,195,369 (GRCm39)	missense	possibly damaging	0.95

Predicted Primers

PCR Primer
(F):5'- CCGTCAACAGGCCTACAATG -3'
(R):5'- CCCAGTGTCATTTCTAGGATGC -3'

Sequencing Primer
(F):5'- GAGACACGGTCAACTCTCCTG -3'
(R):5'- GTCATTTCTAGGATGCTGTTAGC -3'

Posted On

2017-09-06