Mutagenetix > Incidental Mutation

Incidental Mutation 'R1460:Scyl2'

162079

Institutional Source

Beutler Lab

Gene Symbol

Scyl2

Ensembl Gene

ENSMUSG00000069539

Gene Name

SCY1-like 2 (S. cerevisiae)

Synonyms

D10Ertd802e, CVAK104

MMRRC Submission

039515-MU

Accession Numbers

Essential gene?

Probably non essential (E-score: 0.212) question?

Stock #

R1460 (G1)

Quality Score

225

Status

Validated

Chromosome

Chromosomal Location

89474583-89522147 bp(-) (GRCm39)

Type of Mutation

missense

DNA Base Change (assembly)

T to C at 89493751 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Aspartic acid to Glycine at position 339 (D339G)

Ref Sequence

ENSEMBL: ENSMUSP00000133992 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000092227] [ENSMUST00000174252] [ENSMUST00000174492]

AlphaFold

Q8CFE4

Predicted Effect

possibly damaging
Transcript: ENSMUST00000092227
AA Change: D339G

PolyPhen 2 Score 0.758 (Sensitivity: 0.85; Specificity: 0.92)

SMART Domains

Protein: ENSMUSP00000089874
Gene: ENSMUSG00000069539
AA Change: D339G

Domain	Start	End	E-Value	Type
Pfam:Pkinase_Tyr	32	324	9.7e-15	PFAM
Pfam:Pkinase	32	327	4.6e-24	PFAM
low complexity region	356	369	N/A	INTRINSIC
low complexity region	679	704	N/A	INTRINSIC
low complexity region	896	921	N/A	INTRINSIC

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000105294

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000173526

Predicted Effect

possibly damaging
Transcript: ENSMUST00000174252
AA Change: D339G

PolyPhen 2 Score 0.897 (Sensitivity: 0.82; Specificity: 0.94)

SMART Domains

Protein: ENSMUSP00000133992
Gene: ENSMUSG00000069539
AA Change: D339G

Domain	Start	End	E-Value	Type
Pfam:Pkinase_Tyr	32	324	6.4e-15	PFAM
Pfam:Pkinase	32	327	2.9e-26	PFAM
low complexity region	356	369	N/A	INTRINSIC
low complexity region	680	705	N/A	INTRINSIC
low complexity region	897	922	N/A	INTRINSIC

Predicted Effect

possibly damaging
Transcript: ENSMUST00000174492
AA Change: D64G

PolyPhen 2 Score 0.889 (Sensitivity: 0.82; Specificity: 0.94)

SMART Domains

Protein: ENSMUSP00000134366
Gene: ENSMUSG00000069539
AA Change: D64G

Domain	Start	End	E-Value	Type
SCOP:d1b3ua_	66	259	1e-7	SMART

Meta Mutation Damage Score

0.6313

Coding Region Coverage

1x: 98.9%
3x: 98.0%
10x: 95.2%
20x: 89.1%

Validation Efficiency

94% (93/99)

MGI Phenotype

FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] The protein encoded by this gene associates with clathrin-coated complexes at the plasma membrane and with endocytic coated vesicles. The encoded protein phosphorylates the beta2 subunit of the plasma membrane adapter complex AP2 and interacts with clathrin, showing involvement in clathrin-dependent pathways between the trans-Golgi network and the endosomal system. In addition, this protein has a role in the Wnt signaling pathway by targeting frizzled 5 (Fzd5) for lysosomal degradation. Two transcript variants encoding the same protein have been found for this gene. [provided by RefSeq, Dec 2015]
PHENOTYPE: Mice homozygous for a knock-out allele exhibit neonatal lethality, absent gastric milk in neonates, postnatal growth retardation, sensory-motor deficits and limb grapsing. Mice homozygous for a conditional allele exhibit similar phenotypes with near complete loss of CA3 neurons. [provided by MGI curators]

Allele List at MGI

Other mutations in this stock

Total: 96 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
4930522H14Rik	A	T	4: 109,388,407 (GRCm39)		probably null	Het
Abcb11	A	G	2: 69,087,718 (GRCm39)		probably benign	Het
Abi3bp	T	C	16: 56,382,780 (GRCm39)	V130A	probably damaging	Het
Adamts4	A	G	1: 171,084,009 (GRCm39)		probably benign	Het
Adgrd1	A	G	5: 129,199,627 (GRCm39)	T155A	possibly damaging	Het
Ano3	A	T	2: 110,513,103 (GRCm39)	S631T	probably damaging	Het
Ass1	G	A	2: 31,404,753 (GRCm39)	V345I	probably benign	Het
Atg7	G	A	6: 114,680,325 (GRCm39)	A384T	probably damaging	Het
Atp6v0a1	T	A	11: 100,924,824 (GRCm39)	I303N	probably damaging	Het
B3gntl1	T	G	11: 121,530,624 (GRCm39)	Y149S	probably damaging	Het
Btnl2	A	G	17: 34,585,424 (GRCm39)	D475G	probably benign	Het
Cdcp1	A	T	9: 123,009,092 (GRCm39)	S529T	possibly damaging	Het
Cenpt	A	G	8: 106,575,520 (GRCm39)	L194P	probably damaging	Het
Cfhr4	T	A	1: 139,625,934 (GRCm39)	I788F	probably damaging	Het
Chmp4b	A	G	2: 154,534,515 (GRCm39)	D177G	possibly damaging	Het
Chmp7	C	T	14: 69,956,899 (GRCm39)	M336I	probably benign	Het
Cish	G	T	9: 107,177,596 (GRCm39)	E91*	probably null	Het
Col22a1	T	C	15: 71,693,780 (GRCm39)	D740G	unknown	Het
Cplane2	T	C	4: 140,945,523 (GRCm39)	F125L	probably damaging	Het
Crocc	G	A	4: 140,756,551 (GRCm39)	Q1025*	probably null	Het
Ctrc	C	A	4: 141,566,120 (GRCm39)		probably benign	Het
Cyb5r2	T	A	7: 107,356,450 (GRCm39)	D7V	probably benign	Het
Dhx29	T	C	13: 113,101,744 (GRCm39)		probably benign	Het
Dhx9	A	C	1: 153,341,426 (GRCm39)	D607E	probably benign	Het
Dnajb7	C	T	15: 81,291,888 (GRCm39)	G150R	probably benign	Het
Dnase1l3	T	A	14: 7,974,050 (GRCm38)	T214S	probably benign	Het
Dpm1	A	T	2: 168,052,549 (GRCm39)	I229N	probably damaging	Het
Dstn	T	C	2: 143,780,408 (GRCm39)	V36A	possibly damaging	Het
Entpd1	T	C	19: 40,714,632 (GRCm39)	V247A	probably damaging	Het
Ephb3	C	A	16: 21,037,672 (GRCm39)	H277Q	probably benign	Het
Etl4	A	T	2: 20,793,288 (GRCm39)	N671I	probably damaging	Het
Fabp3	C	T	4: 130,206,180 (GRCm39)	T57I	probably benign	Het
Fancd2os	G	A	6: 113,574,973 (GRCm39)	T11I	probably damaging	Het
Fcrlb	G	T	1: 170,739,853 (GRCm39)		probably benign	Het
Fhip1a	T	C	3: 85,638,183 (GRCm39)	I39V	probably damaging	Het
Gm9991	T	C	1: 90,606,780 (GRCm39)		noncoding transcript	Het
Gstk1	C	T	6: 42,223,529 (GRCm39)	R40W	probably damaging	Het
Gstt1	C	T	10: 75,620,004 (GRCm39)	V190M	probably damaging	Het
Hectd2	G	A	19: 36,592,908 (GRCm39)	W691*	probably null	Het
Hecw2	T	C	1: 53,852,404 (GRCm39)	T1572A	probably damaging	Het
Hoxa5	T	C	6: 52,180,928 (GRCm39)	T135A	probably benign	Het
Igfl3	T	A	7: 17,913,880 (GRCm39)	C77S	possibly damaging	Het
Itgb4	A	G	11: 115,874,990 (GRCm39)	D449G	probably damaging	Het
Larp1b	T	C	3: 40,916,653 (GRCm39)	V11A	probably benign	Het
Lhx9	A	G	1: 138,766,447 (GRCm39)		probably benign	Het
Lig3	G	T	11: 82,686,624 (GRCm39)		probably benign	Het
Lipo4	A	C	19: 33,476,718 (GRCm39)	F343L	probably benign	Het
Lyn	T	A	4: 3,789,908 (GRCm39)	Y480*	probably null	Het
Mib2	C	T	4: 155,743,917 (GRCm39)	G42S	probably damaging	Het
Mill1	C	A	7: 17,996,595 (GRCm39)	A137D	probably damaging	Het
Mmut	T	C	17: 41,248,266 (GRCm39)	Y98H	probably damaging	Het
Morc2a	A	T	11: 3,633,794 (GRCm39)	R635S	probably benign	Het
Mpped2	A	G	2: 106,575,237 (GRCm39)		probably benign	Het
Mug2	T	C	6: 122,017,492 (GRCm39)		probably benign	Het
Mynn	C	A	3: 30,657,853 (GRCm39)	S57Y	probably damaging	Het
Myo3b	G	A	2: 70,062,798 (GRCm39)	E333K	probably benign	Het
Myt1	A	T	2: 181,444,725 (GRCm39)	I514F	probably damaging	Het
Nlrp4f	A	G	13: 65,338,082 (GRCm39)	C708R	probably benign	Het
Nod2	A	G	8: 89,390,440 (GRCm39)	E249G	probably damaging	Het
Npy2r	T	C	3: 82,448,251 (GRCm39)	I175V	probably benign	Het
Obscn	A	T	11: 58,946,792 (GRCm39)	V4114D	probably damaging	Het
Or1l8	A	T	2: 36,817,820 (GRCm39)	M102K	probably damaging	Het
Or2y12	T	A	11: 49,426,504 (GRCm39)	M164K	possibly damaging	Het
Or4a76	A	G	2: 89,460,282 (GRCm39)		probably null	Het
Or52e7	T	A	7: 104,684,915 (GRCm39)	I170N	possibly damaging	Het
Or8g33	A	G	9: 39,337,503 (GRCm39)	M288T	probably benign	Het
Pbxip1	T	A	3: 89,352,921 (GRCm39)	I196N	probably damaging	Het
Piezo1	G	A	8: 123,228,890 (GRCm39)	T209M	possibly damaging	Het
Polr1a	T	C	6: 71,918,368 (GRCm39)	M642T	probably damaging	Het
Prdm4	T	C	10: 85,743,686 (GRCm39)	M190V	probably benign	Het
Psmd7	G	A	8: 108,307,691 (GRCm39)	S264L	possibly damaging	Het
Qrich1	T	G	9: 108,410,846 (GRCm39)		probably benign	Het
Rapgef4	G	T	2: 71,861,520 (GRCm39)		probably null	Het
Rfx5	T	C	3: 94,863,636 (GRCm39)	I95T	probably damaging	Het
Rgr	G	A	14: 36,767,683 (GRCm39)	R113C	probably damaging	Het
Rnf20	T	C	4: 49,645,873 (GRCm39)		probably benign	Het
Rps3a1	G	A	3: 86,045,369 (GRCm39)	A241V	probably benign	Het
Rttn	A	T	18: 89,127,481 (GRCm39)		probably benign	Het
Scn2a	A	G	2: 65,532,187 (GRCm39)	T600A	probably damaging	Het
Sipa1	T	A	19: 5,701,475 (GRCm39)	H1029L	probably benign	Het
Slc49a4	T	C	16: 35,539,736 (GRCm39)	T362A	probably benign	Het
Snrnp48	A	G	13: 38,395,081 (GRCm39)	T124A	probably benign	Het
Sptbn1	A	T	11: 30,088,637 (GRCm39)	M875K	possibly damaging	Het
Supt6	A	G	11: 78,113,024 (GRCm39)	V973A	possibly damaging	Het
Supv3l1	T	C	10: 62,279,162 (GRCm39)		probably benign	Het
Svep1	G	T	4: 58,068,740 (GRCm39)	N3015K	possibly damaging	Het
Tgfb3	A	G	12: 86,105,841 (GRCm39)		probably benign	Het
Trerf1	A	G	17: 47,628,771 (GRCm39)		noncoding transcript	Het
Trim24	T	A	6: 37,941,761 (GRCm39)	F904I	probably damaging	Het
Trim30d	T	A	7: 104,121,311 (GRCm39)	Y328F	probably benign	Het
Ttn	T	C	2: 76,698,717 (GRCm39)	E6G	probably damaging	Het
Ube2m	T	C	7: 12,769,762 (GRCm39)		probably benign	Het
Vmn2r-ps158	A	T	7: 42,672,639 (GRCm39)	R91S	probably benign	Het
Wdr90	A	T	17: 26,079,422 (GRCm39)	S237R	possibly damaging	Het
Zfp735	A	T	11: 73,603,159 (GRCm39)	H701L	possibly damaging	Het
Zp1	T	C	19: 10,896,242 (GRCm39)	D161G	probably benign	Het

Other mutations in Scyl2

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL00567:Scyl2	APN	10	89,493,671 (GRCm39)	critical splice donor site	probably null
IGL01141:Scyl2	APN	10	89,476,497 (GRCm39)	missense	probably benign
IGL01597:Scyl2	APN	10	89,488,849 (GRCm39)	missense	probably damaging	0.99
IGL01713:Scyl2	APN	10	89,490,087 (GRCm39)	missense	probably damaging	1.00
IGL02349:Scyl2	APN	10	89,493,800 (GRCm39)	splice site	probably benign
IGL02466:Scyl2	APN	10	89,488,871 (GRCm39)	nonsense	probably null
IGL02511:Scyl2	APN	10	89,476,681 (GRCm39)	missense	probably benign
IGL02949:Scyl2	APN	10	89,496,163 (GRCm39)	missense	possibly damaging	0.82
IGL03087:Scyl2	APN	10	89,488,830 (GRCm39)	missense	possibly damaging	0.93
IGL03117:Scyl2	APN	10	89,493,729 (GRCm39)	missense	possibly damaging	0.95
IGL03228:Scyl2	APN	10	89,485,942 (GRCm39)	missense	probably damaging	1.00
R0019:Scyl2	UTSW	10	89,495,183 (GRCm39)	missense	probably benign	0.44
R0827:Scyl2	UTSW	10	89,493,727 (GRCm39)	missense	possibly damaging	0.91
R1394:Scyl2	UTSW	10	89,476,827 (GRCm39)	missense	possibly damaging	0.59
R1572:Scyl2	UTSW	10	89,486,818 (GRCm39)	missense	probably damaging	1.00
R1624:Scyl2	UTSW	10	89,476,598 (GRCm39)	missense	probably benign	0.19
R1909:Scyl2	UTSW	10	89,476,767 (GRCm39)	missense	probably benign	0.01
R3846:Scyl2	UTSW	10	89,476,403 (GRCm39)	missense	probably damaging	1.00
R4041:Scyl2	UTSW	10	89,485,914 (GRCm39)	missense	probably damaging	1.00
R4077:Scyl2	UTSW	10	89,476,458 (GRCm39)	missense	probably benign	0.01
R4079:Scyl2	UTSW	10	89,476,458 (GRCm39)	missense	probably benign	0.01
R4765:Scyl2	UTSW	10	89,495,160 (GRCm39)	missense	probably damaging	0.97
R4855:Scyl2	UTSW	10	89,476,325 (GRCm39)	utr 3 prime	probably benign
R5308:Scyl2	UTSW	10	89,477,869 (GRCm39)	missense	probably benign	0.01
R5894:Scyl2	UTSW	10	89,476,681 (GRCm39)	missense	probably benign
R5901:Scyl2	UTSW	10	89,496,124 (GRCm39)	missense	probably benign	0.03
R6048:Scyl2	UTSW	10	89,481,348 (GRCm39)	missense	probably benign	0.33
R6249:Scyl2	UTSW	10	89,493,719 (GRCm39)	missense	possibly damaging	0.93
R6658:Scyl2	UTSW	10	89,476,835 (GRCm39)	missense	probably benign	0.01
R6827:Scyl2	UTSW	10	89,505,666 (GRCm39)	critical splice acceptor site	probably null
R6909:Scyl2	UTSW	10	89,481,604 (GRCm39)	missense	probably benign	0.28
R7027:Scyl2	UTSW	10	89,481,323 (GRCm39)	critical splice donor site	probably null
R7095:Scyl2	UTSW	10	89,505,549 (GRCm39)	missense	probably damaging	1.00
R8062:Scyl2	UTSW	10	89,490,022 (GRCm39)	missense	probably damaging	0.97
R8095:Scyl2	UTSW	10	89,476,965 (GRCm39)	missense	probably damaging	1.00
R8197:Scyl2	UTSW	10	89,498,228 (GRCm39)	missense	probably benign	0.33
R8232:Scyl2	UTSW	10	89,498,309 (GRCm39)	missense	probably damaging	1.00
R8241:Scyl2	UTSW	10	89,489,971 (GRCm39)	missense	possibly damaging	0.80
R8263:Scyl2	UTSW	10	89,476,525 (GRCm39)	missense	possibly damaging	0.50
R9020:Scyl2	UTSW	10	89,488,858 (GRCm39)	missense	probably damaging	1.00
R9748:Scyl2	UTSW	10	89,476,794 (GRCm39)	missense	probably benign	0.11
Z1177:Scyl2	UTSW	10	89,505,577 (GRCm39)	frame shift	probably null

Predicted Primers

PCR Primer
(F):5'- AGTAACCAGCACAGGTAGCCTTAACA -3'
(R):5'- tgctttttgggtttttcagaggTATTCTAGT -3'

Sequencing Primer
(F):5'- GCATCGTAAGGTTCACATCCG -3'
(R):5'- aaatccgcctgcctctg -3'

Posted On

2014-03-14