Mutagenetix > Incidental Mutations

Incidental Mutation 'R0114:Phykpl'

20668

Institutional Source

Beutler Lab

Gene Symbol

Phykpl

Ensembl Gene

ENSMUSG00000020359

Gene Name

5-phosphohydroxy-L-lysine phospholyase

Synonyms

Agxt2l2, 2900006B13Rik

MMRRC Submission

038400-MU

Accession Numbers

Is this an essential gene?

Possibly essential (E-score: 0.547) question?

Stock #

R0114 (G1)

Quality Score

Status

Validated (trace)

Chromosome

Chromosomal Location

51584757-51604489 bp(+) (GRCm38)

Type of Mutation

missense

DNA Base Change (assembly)

G to A at 51586653 bp (GRCm38)

Zygosity

Heterozygous

Amino Acid Change

Aspartic acid to Asparagine at position 91 (D91N)

Ref Sequence

ENSEMBL: ENSMUSP00000132190 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000020625] [ENSMUST00000101250] [ENSMUST00000102765] [ENSMUST00000167797]

AlphaFold

Q8R1K4

Predicted Effect

probably benign
Transcript: ENSMUST00000020625
AA Change: D91N

PolyPhen 2 Score 0.004 (Sensitivity: 0.98; Specificity: 0.59)

SMART Domains

Protein: ENSMUSP00000020625
Gene: ENSMUSG00000020359
AA Change: D91N

Domain	Start	End	E-Value	Type
low complexity region	14	25	N/A	INTRINSIC
Pfam:Aminotran_3	27	433	2.1e-81	PFAM

Predicted Effect

probably benign
Transcript: ENSMUST00000101250
AA Change: D91N

PolyPhen 2 Score 0.002 (Sensitivity: 0.99; Specificity: 0.30)

SMART Domains

Protein: ENSMUSP00000098808
Gene: ENSMUSG00000020359
AA Change: D91N

Domain	Start	End	E-Value	Type
low complexity region	14	25	N/A	INTRINSIC
Pfam:Aminotran_3	33	212	8.2e-29	PFAM

Predicted Effect

probably benign
Transcript: ENSMUST00000102765

SMART Domains

Protein: ENSMUSP00000099826
Gene: ENSMUSG00000063564

Domain	Start	End	E-Value	Type
low complexity region	2	50	N/A	INTRINSIC
Pfam:Collagen	107	162	3.7e-10	PFAM
Pfam:Collagen	140	207	1.3e-9	PFAM
low complexity region	212	237	N/A	INTRINSIC
Pfam:Collagen	239	299	1.8e-11	PFAM
Pfam:Collagen	309	367	1.8e-10	PFAM
Pfam:Collagen	331	390	6.6e-11	PFAM
Pfam:Collagen	402	463	2.4e-11	PFAM
Pfam:Collagen	455	523	3.7e-11	PFAM

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000109105

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000156128

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000164864

Predicted Effect

probably benign
Transcript: ENSMUST00000167797
AA Change: D91N

PolyPhen 2 Score 0.004 (Sensitivity: 0.98; Specificity: 0.59)

SMART Domains

Protein: ENSMUSP00000132190
Gene: ENSMUSG00000020359
AA Change: D91N

Domain	Start	End	E-Value	Type
low complexity region	14	25	N/A	INTRINSIC
Pfam:Aminotran_3	33	373	1.5e-75	PFAM

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000169823

Meta Mutation Damage Score

0.0922

Coding Region Coverage

1x: 98.6%
3x: 97.4%
10x: 93.2%
20x: 79.2%

Validation Efficiency

100% (99/99)

MGI Phenotype

FUNCTION: This gene overlaps in a tail-to-tail orientation the gene encoding heterogeneous nuclear ribonucleoprotein A/B. The terminal exon of this gene is interspersed with exons of heterogeneous nuclear ribonucleoprotein A/B. [provided by RefSeq, Jul 2008]

Allele List at MGI

Other mutations in this stock

Total: 83 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
2310057J18Rik	T	C	10: 28,985,982		probably benign	Het
4933427D14Rik	T	C	11: 72,195,799	Y262C	probably damaging	Het
Adamts1	C	A	16: 85,799,614	V379L	probably benign	Het
Akt3	T	C	1: 177,067,251	D260G	probably damaging	Het
Alms1	T	C	6: 85,619,803	L537P	probably benign	Het
Anln	A	T	9: 22,353,346	I876N	probably damaging	Het
Ano9	A	T	7: 141,103,239		probably benign	Het
Arhgef10l	T	C	4: 140,583,883	E218G	probably benign	Het
Arnt2	G	A	7: 84,347,530	R63C	probably damaging	Het
Atp9a	G	T	2: 168,710,856	Y63*	probably null	Het
Bmpr2	G	T	1: 59,815,340	C116F	probably damaging	Het
Cand1	T	C	10: 119,216,522	D233G	probably benign	Het
Cftr	A	T	6: 18,282,448	H1049L	probably damaging	Het
Ckap5	A	T	2: 91,620,112	D1975V	possibly damaging	Het
Cyp26c1	T	C	19: 37,686,633	V134A	probably benign	Het
Dnaic1	T	C	4: 41,605,686		probably benign	Het
Dpp10	T	C	1: 123,486,092	I163V	probably benign	Het
Fam151a	A	T	4: 106,734,004	I15F	possibly damaging	Het
Fanca	A	T	8: 123,288,491		probably null	Het
Fes	A	G	7: 80,378,035	V787A	probably damaging	Het
Fnip1	C	T	11: 54,487,801		probably benign	Het
Gabpb1	A	G	2: 126,653,574	I86T	probably damaging	Het
Gm1840	A	G	8: 5,640,359		noncoding transcript	Het
Gmds	A	T	13: 32,227,281	S57T	probably benign	Het
Gnpat	T	G	8: 124,883,357	D426E	probably benign	Het
Gnptab	C	A	10: 88,433,400	P655Q	possibly damaging	Het
Herc1	T	A	9: 66,461,846	F2941I	probably damaging	Het
Herc2	T	C	7: 56,153,774		probably benign	Het
Ino80	G	A	2: 119,382,960	R1249C	probably damaging	Het
Itga11	T	G	9: 62,735,293	V166G	probably damaging	Het
Itga11	T	C	9: 62,760,302	V639A	possibly damaging	Het
Itpr2	A	G	6: 146,312,879	F1490S	probably damaging	Het
Lama2	C	A	10: 26,993,068	E802*	probably null	Het
Lgi3	C	T	14: 70,531,029		probably benign	Het
Limch1	C	T	5: 67,036,084		probably benign	Het
Lipc	T	C	9: 70,803,781	N363S	probably damaging	Het
Lrit2	A	G	14: 37,068,045		probably null	Het
Mfsd13a	C	T	19: 46,366,504	T40I	probably benign	Het
Mug2	A	G	6: 122,040,648	Y448C	probably damaging	Het
Mybpc3	A	G	2: 91,124,494	E450G	probably damaging	Het
Myo5b	A	T	18: 74,742,171	T1549S	probably benign	Het
Naa15	T	C	3: 51,448,438		probably null	Het
Nckap1l	T	A	15: 103,455,028	C54S	probably benign	Het
Nlrp9b	A	G	7: 20,024,056	D406G	probably benign	Het
Nprl3	T	A	11: 32,239,784		probably benign	Het
Nvl	A	G	1: 181,120,391	V429A	probably benign	Het
Olfr114	A	T	17: 37,589,415	*313K	probably null	Het
Olfr54	G	A	11: 51,027,604	V201I	probably benign	Het
Olfr548-ps1	A	T	7: 102,542,731	Q265L	probably benign	Het
Olfr801	T	A	10: 129,669,598	Y307F	probably benign	Het
Opa1	A	T	16: 29,629,635	N912Y	probably benign	Het
Pcnx	T	C	12: 81,996,095	V2317A	possibly damaging	Het
Phf3	A	T	1: 30,805,443	N1478K	possibly damaging	Het
Polr2b	T	A	5: 77,343,263	C984S	probably damaging	Het
Ppfibp1	A	G	6: 146,998,233	R141G	probably benign	Het
Ppm1d	G	A	11: 85,326,905	G20R	probably damaging	Het
Ppp1r16a	C	T	15: 76,690,799		probably benign	Het
Ppp2r5b	C	A	19: 6,228,431	V483F	probably benign	Het
Ppp4r4	T	A	12: 103,576,374	C132S	probably benign	Het
Prg2	A	G	2: 84,983,456		probably benign	Het
Prpf4b	G	A	13: 34,890,488		probably benign	Het
Rad54l2	T	C	9: 106,713,455	T491A	probably damaging	Het
Rnf213	G	T	11: 119,414,587	W548L	probably damaging	Het
Rusc2	G	T	4: 43,422,055	C825F	probably damaging	Het
Sema4b	A	G	7: 80,219,078		probably benign	Het
Sema6a	A	G	18: 47,290,177	V254A	probably damaging	Het
Slc13a3	A	G	2: 165,424,581	F346L	probably damaging	Het
Slc25a17	T	C	15: 81,337,959	D104G	probably damaging	Het
Specc1	A	T	11: 62,146,313	N707Y	possibly damaging	Het
Tex48	T	A	4: 63,608,459	E76V	probably damaging	Het
Tfr2	T	C	5: 137,577,465	V281A	probably benign	Het
Tgfb1i1	A	C	7: 128,249,494	Q238H	probably damaging	Het
Thoc6	G	A	17: 23,670,239	T122I	probably benign	Het
Tmtc1	G	A	6: 148,412,830		probably benign	Het
Tnfrsf8	T	C	4: 145,288,047	D264G	possibly damaging	Het
Trim43a	T	A	9: 88,584,160	I178N	probably damaging	Het
Ttn	G	C	2: 76,707,093	I26503M	possibly damaging	Het
Usp28	C	A	9: 49,039,023	D589E	probably benign	Het
Utp23	T	C	15: 51,882,511	S242P	probably damaging	Het
Vwa3a	A	G	7: 120,775,380	Y305C	probably benign	Het
Vwa5b1	C	A	4: 138,608,858	E142*	probably null	Het
Xrn2	A	T	2: 147,029,779	T374S	probably damaging	Het
Zfp735	A	T	11: 73,710,662	Q144L	probably benign	Het

Other mutations in Phykpl

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL01336:Phykpl	APN	11	51599456	splice site	probably benign
IGL01809:Phykpl	APN	11	51599524	missense	probably benign	0.09
IGL02636:Phykpl	APN	11	51598713	missense	probably damaging	1.00
IGL02668:Phykpl	APN	11	51593687	critical splice donor site	probably null
R0308:Phykpl	UTSW	11	51593596	splice site	probably benign
R0332:Phykpl	UTSW	11	51586675	missense	probably benign	0.30
R0831:Phykpl	UTSW	11	51585539	nonsense	probably null
R3434:Phykpl	UTSW	11	51598655	missense	probably benign
R4272:Phykpl	UTSW	11	51585528	missense	probably damaging	1.00
R4539:Phykpl	UTSW	11	51594088	missense	probably damaging	1.00
R4618:Phykpl	UTSW	11	51592229	missense	probably damaging	1.00
R4633:Phykpl	UTSW	11	51593608	missense	probably damaging	1.00
R4816:Phykpl	UTSW	11	51592953	missense	probably benign
R4823:Phykpl	UTSW	11	51586593	missense	probably damaging	0.99
R5415:Phykpl	UTSW	11	51585515	missense	probably benign	0.00
R5920:Phykpl	UTSW	11	51602795	missense	probably benign
R6370:Phykpl	UTSW	11	51586716	missense	probably damaging	1.00
R6611:Phykpl	UTSW	11	51598354	missense	probably damaging	1.00
R6617:Phykpl	UTSW	11	51593954	missense	probably damaging	1.00
R7319:Phykpl	UTSW	11	51598703	missense	probably benign	0.20
R7340:Phykpl	UTSW	11	51599543	missense	probably damaging	1.00
R7499:Phykpl	UTSW	11	51591458	missense	probably damaging	1.00
R7947:Phykpl	UTSW	11	51586581	missense	probably damaging	0.98
R8146:Phykpl	UTSW	11	51585581	missense	probably damaging	1.00
R8353:Phykpl	UTSW	11	51598294	missense	probably damaging	1.00
R8453:Phykpl	UTSW	11	51598294	missense	probably damaging	1.00
R9157:Phykpl	UTSW	11	51599548	missense	probably benign	0.10
R9295:Phykpl	UTSW	11	51591404	missense	possibly damaging	0.77

Predicted Primers

PCR Primer
(F):5'- CTTGCTTTGACCATGTTGGCACG -3'
(R):5'- GGATCTACAACCTAGAAGCCCAGGAG -3'

Sequencing Primer
(F):5'- AGCTCTAAGAATGCAGATGCC -3'
(R):5'- AGCCTCGCCATGAAGTTG -3'

Posted On

2013-04-11