Mutagenetix > Incidental Mutation

Incidental Mutation 'R1499:Snx15'

168746

Institutional Source

Beutler Lab

Gene Symbol

Snx15

Ensembl Gene

ENSMUSG00000024787

Gene Name

sorting nexin 15

Synonyms

E130013C21Rik, 1500032B08Rik

MMRRC Submission

039550-MU

Accession Numbers

Essential gene?

Non essential (E-score: 0.000) question?

Stock #

R1499 (G1)

Quality Score

225

Status

Validated

Chromosome

Chromosomal Location

6169429-6178334 bp(-) (GRCm39)

Type of Mutation

missense

DNA Base Change (assembly)

G to C at 6172094 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Serine to Arginine at position 116 (S116R)

Ref Sequence

ENSEMBL: ENSMUSP00000122740 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000025702] [ENSMUST00000113533] [ENSMUST00000138931] [ENSMUST00000154601]

AlphaFold

Q91WE1

Predicted Effect

probably benign
Transcript: ENSMUST00000025702
AA Change: S116R

PolyPhen 2 Score 0.389 (Sensitivity: 0.90; Specificity: 0.89)

SMART Domains

Protein: ENSMUSP00000025702
Gene: ENSMUSG00000024787
AA Change: S116R

Domain	Start	End	E-Value	Type
PX	8	126	1.78e-22	SMART
low complexity region	140	151	N/A	INTRINSIC
MIT	265	337	7.77e-20	SMART

Predicted Effect

probably benign
Transcript: ENSMUST00000113533

SMART Domains

Protein: ENSMUSP00000109161
Gene: ENSMUSG00000024790

Domain	Start	End	E-Value	Type
low complexity region	17	32	N/A	INTRINSIC
low complexity region	89	100	N/A	INTRINSIC
Pfam:SAC3_GANP	134	356	7.6e-50	PFAM

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000124171

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000124964

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000129076

Predicted Effect

probably damaging
Transcript: ENSMUST00000138931
AA Change: S104R

PolyPhen 2 Score 0.995 (Sensitivity: 0.68; Specificity: 0.97)

SMART Domains

Protein: ENSMUSP00000114189
Gene: ENSMUSG00000024787
AA Change: S104R

Domain	Start	End	E-Value	Type
PX	8	112	1.69e-14	SMART

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000150718

Predicted Effect

probably damaging
Transcript: ENSMUST00000154601
AA Change: S116R

PolyPhen 2 Score 0.997 (Sensitivity: 0.41; Specificity: 0.98)

SMART Domains

Protein: ENSMUSP00000122740
Gene: ENSMUSG00000024787
AA Change: S116R

Domain	Start	End	E-Value	Type
PX	8	126	1.78e-22	SMART
low complexity region	140	151	N/A	INTRINSIC
Blast:MIT	222	251	4e-12	BLAST

Meta Mutation Damage Score

0.9141

Coding Region Coverage

1x: 99.1%
3x: 98.3%
10x: 96.4%
20x: 93.4%

Validation Efficiency

99% (83/84)

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 sorting nexin family. Members of this family contain a phox (PX) domain, which is a phosphoinositide binding domain, and are involved in intracellular trafficking. Overexpression of this gene results in a decrease in the processing of insulin and hepatocyte growth factor receptors to their mature subunits. This decrease is caused by the mislocalization of furin, the endoprotease responsible for cleavage of insulin and hepatocyte growth factor receptors. This protein is involved in endosomal trafficking from the plasma membrane to recycling endosomes or the trans-Golgi network. Alternative splicing results in multiple transcript variants. Read-through transcription also exists between this gene and the upstream ADP-ribosylation factor-like 2 (ARL2) gene. [provided by RefSeq, Dec 2010]

Allele List at MGI

Other mutations in this stock

Total: 81 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
Abca9	T	A	11: 110,030,458 (GRCm39)	Y763F	probably benign	Het
Abcb10	C	T	8: 124,688,791 (GRCm39)	G495D	probably damaging	Het
Actl11	A	G	9: 107,808,682 (GRCm39)	T1002A	probably damaging	Het
Ampd1	T	A	3: 102,998,980 (GRCm39)	N378K	probably damaging	Het
Arhgap42	A	G	9: 9,033,587 (GRCm39)		probably benign	Het
Arhgap6	C	A	X: 167,579,499 (GRCm39)	P95T	possibly damaging	Het
Atg14	T	C	14: 47,798,102 (GRCm39)	N87S	probably benign	Het
Atp9b	C	T	18: 80,805,353 (GRCm39)	C735Y	probably damaging	Het
Atp9b	T	A	18: 80,822,122 (GRCm39)	T110S	probably benign	Het
Birc6	T	G	17: 74,919,314 (GRCm39)	L221R	probably damaging	Het
Ces1c	A	G	8: 93,854,233 (GRCm39)	F101L	probably benign	Het
Cfap91	A	G	16: 38,141,762 (GRCm39)	V390A	probably damaging	Het
Chsy1	T	C	7: 65,821,750 (GRCm39)	Y662H	probably damaging	Het
Cldn12	A	T	5: 5,557,900 (GRCm39)	F176I	probably benign	Het
Col5a2	A	G	1: 45,450,626 (GRCm39)	S374P	probably benign	Het
Col6a2	A	T	10: 76,439,544 (GRCm39)	V740E	probably damaging	Het
Cpne3	A	T	4: 19,526,336 (GRCm39)	I401K	probably damaging	Het
Cspp1	T	A	1: 10,159,191 (GRCm39)		probably null	Het
Ddn	G	A	15: 98,704,647 (GRCm39)	T215I	possibly damaging	Het
Dync1i1	T	C	6: 5,769,799 (GRCm39)		probably benign	Het
Dync2li1	T	C	17: 84,954,667 (GRCm39)		probably benign	Het
Eif2a	T	A	3: 58,445,005 (GRCm39)	L50*	probably null	Het
Elavl3	G	A	9: 21,929,875 (GRCm39)	A343V	probably damaging	Het
Fastkd1	T	C	2: 69,538,982 (GRCm39)		probably null	Het
Fgf8	C	A	19: 45,730,786 (GRCm39)	V80F	possibly damaging	Het
Fras1	A	T	5: 96,891,046 (GRCm39)	E2858D	probably benign	Het
Fshr	A	T	17: 89,293,529 (GRCm39)	L383Q	probably damaging	Het
Glb1	A	G	9: 114,246,171 (GRCm39)	K74R	probably benign	Het
Gmeb2	T	G	2: 180,897,019 (GRCm39)	M290L	probably benign	Het
Gnptg	A	G	17: 25,454,828 (GRCm39)		probably null	Het
Grik2	A	C	10: 49,008,871 (GRCm39)	S739A	probably damaging	Het
Grk2	T	A	19: 4,337,222 (GRCm39)	Q659L	probably benign	Het
Hdhd5	A	G	6: 120,491,473 (GRCm39)	V210A	probably damaging	Het
Hyal1	C	T	9: 107,455,091 (GRCm39)	L134F	probably damaging	Het
Itgb2	A	T	10: 77,381,987 (GRCm39)	K18N	possibly damaging	Het
Jam3	A	T	9: 27,017,701 (GRCm39)	I29K	possibly damaging	Het
Kcnh3	C	A	15: 99,137,796 (GRCm39)	D830E	probably benign	Het
Kcnmb4	T	C	10: 116,309,203 (GRCm39)	D75G	possibly damaging	Het
Kdm4b	A	G	17: 56,707,025 (GRCm39)	Y981C	probably damaging	Het
Klk1b26	C	A	7: 43,665,810 (GRCm39)	D207E	probably benign	Het
Kmt2a	G	T	9: 44,759,563 (GRCm39)	T762N	probably benign	Het
Kmt2d	A	G	15: 98,742,819 (GRCm39)		probably benign	Het
Lama4	T	C	10: 38,964,876 (GRCm39)	S1414P	possibly damaging	Het
Lce1f	C	G	3: 92,626,276 (GRCm39)	C127S	unknown	Het
Map7d1	A	G	4: 126,128,558 (GRCm39)		probably null	Het
Ninl	T	C	2: 150,822,096 (GRCm39)	D2G	possibly damaging	Het
Or2w1b	T	A	13: 21,300,303 (GRCm39)	M147K	probably benign	Het
Or5k3	A	G	16: 58,969,287 (GRCm39)	T25A	probably benign	Het
Or5m11b	C	T	2: 85,806,372 (GRCm39)	P262S	possibly damaging	Het
Or6n1	T	A	1: 173,916,813 (GRCm39)	L69*	probably null	Het
Or8g18	G	C	9: 39,149,547 (GRCm39)	P58A	probably benign	Het
Pax8	A	G	2: 24,319,608 (GRCm39)	Y381H	possibly damaging	Het
Pde7a	T	C	3: 19,314,408 (GRCm39)	I63V	possibly damaging	Het
Pgm3	A	T	9: 86,452,340 (GRCm39)	F40Y	probably benign	Het
Phrf1	G	T	7: 140,836,564 (GRCm39)	D78Y	probably damaging	Het
Plekhg1	C	T	10: 3,890,538 (GRCm39)		probably benign	Het
Prss59	A	T	6: 40,898,652 (GRCm39)	S199T	probably benign	Het
Pum1	T	C	4: 130,446,567 (GRCm39)	S209P	probably damaging	Het
Qtrt2	A	T	16: 43,689,337 (GRCm39)	F220L	probably benign	Het
Rgs9	A	G	11: 109,159,747 (GRCm39)		probably null	Het
Rin3	A	G	12: 102,335,018 (GRCm39)	T230A	unknown	Het
Ros1	A	T	10: 51,974,773 (GRCm39)	V1604E	possibly damaging	Het
Rpp14	A	G	14: 8,090,528 (GRCm38)	M151V	probably benign	Het
Sacs	T	A	14: 61,451,153 (GRCm39)	F4400I	possibly damaging	Het
Scamp1	C	T	13: 94,361,437 (GRCm39)	V148I	probably benign	Het
Slc13a5	A	G	11: 72,141,557 (GRCm39)	C428R	probably damaging	Het
Slc43a2	T	G	11: 75,453,733 (GRCm39)		probably null	Het
Smarcc2	T	A	10: 128,299,741 (GRCm39)	N135K	probably damaging	Het
Stag1	A	G	9: 100,737,885 (GRCm39)	E414G	possibly damaging	Het
Stag1	A	T	9: 100,769,426 (GRCm39)		probably benign	Het
Tmem106a	T	A	11: 101,481,263 (GRCm39)	L257Q	possibly damaging	Het
Tnc	C	T	4: 63,882,991 (GRCm39)	D1968N	probably benign	Het
Trim42	A	G	9: 97,248,138 (GRCm39)	L186P	possibly damaging	Het
Tshb	T	A	3: 102,685,624 (GRCm39)		probably benign	Het
Ttn	T	A	2: 76,584,484 (GRCm39)	D13881V	probably damaging	Het
Uqcrc2	T	C	7: 120,239,506 (GRCm39)	V56A	probably benign	Het
Uty	G	A	Y: 1,197,228 (GRCm39)	T113I	probably damaging	Het
Vps13c	A	G	9: 67,864,787 (GRCm39)	E3032G	probably benign	Het
Wfdc9	T	G	2: 164,493,729 (GRCm39)		probably benign	Het
Zc3h7a	G	A	16: 10,980,520 (GRCm39)	T31I	probably damaging	Het
Zfp462	T	C	4: 55,060,046 (GRCm39)	S1191P	probably damaging	Het

Other mutations in Snx15

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL01292:Snx15	APN	19	6,169,915 (GRCm39)	missense	probably benign	0.00
IGL02102:Snx15	APN	19	6,172,104 (GRCm39)	missense	possibly damaging	0.69
PIT4418001:Snx15	UTSW	19	6,173,961 (GRCm39)	missense	probably damaging	1.00
R0079:Snx15	UTSW	19	6,173,943 (GRCm39)	missense	probably damaging	1.00
R0654:Snx15	UTSW	19	6,171,915 (GRCm39)	missense	probably benign	0.33
R1943:Snx15	UTSW	19	6,178,096 (GRCm39)	missense	probably damaging	1.00
R2991:Snx15	UTSW	19	6,171,515 (GRCm39)	missense	probably damaging	0.99
R3769:Snx15	UTSW	19	6,173,984 (GRCm39)	splice site	probably benign
R5117:Snx15	UTSW	19	6,174,181 (GRCm39)	critical splice donor site	probably null
R5763:Snx15	UTSW	19	6,172,140 (GRCm39)	missense	probably damaging	0.99
R6219:Snx15	UTSW	19	6,171,538 (GRCm39)	missense	probably damaging	0.99
R7024:Snx15	UTSW	19	6,170,626 (GRCm39)	missense	probably damaging	0.98
R7297:Snx15	UTSW	19	6,170,537 (GRCm39)	missense	probably damaging	1.00
R8139:Snx15	UTSW	19	6,169,946 (GRCm39)	missense	probably damaging	1.00
R8139:Snx15	UTSW	19	6,169,945 (GRCm39)	missense	probably damaging	1.00
R8750:Snx15	UTSW	19	6,170,593 (GRCm39)	missense	probably benign	0.34
Z1088:Snx15	UTSW	19	6,171,441 (GRCm39)	missense	probably damaging	0.96

Predicted Primers

PCR Primer
(F):5'- TGAGATACCTGGCACCTCCAACTC -3'
(R):5'- CGTATCCAAGCCTCAAATGGCCTTTC -3'

Sequencing Primer
(F):5'- AAGTAGCCGGGCCTCATC -3'
(R):5'- caaaaaaaccaagagagagagagag -3'

Posted On

2014-04-13