Mutagenetix > Incidental Mutation

Incidental Mutation 'R5093:Ptpn22'

387903

Institutional Source

Beutler Lab

Gene Symbol

Ptpn22

Ensembl Gene

ENSMUSG00000027843

Gene Name

protein tyrosine phosphatase, non-receptor type 22 (lymphoid)

Synonyms

Ptpn8, 70zpep

MMRRC Submission

042682-MU

Accession Numbers

Essential gene?

Probably essential (E-score: 0.879) question?

Stock #

R5093 (G1)

Quality Score

195

Status

Validated

Chromosome

Chromosomal Location

103767111-103819563 bp(+) (GRCm39)

Type of Mutation

missense

DNA Base Change (assembly)

T to G at 103789418 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Methionine to Arginine at position 294 (M294R)

Ref Sequence

ENSEMBL: ENSMUSP00000029433 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000029433] [ENSMUST00000146071]

AlphaFold

P29352

PDB Structure

Solution structure of the SH3 domain from C-terminal Src Kinase complexed with a peptide from the tyrosine phosphatase PEP [SOLUTION NMR]

Predicted Effect

probably benign
Transcript: ENSMUST00000029433
AA Change: M294R

PolyPhen 2 Score 0.388 (Sensitivity: 0.90; Specificity: 0.89)

SMART Domains

Protein: ENSMUSP00000029433
Gene: ENSMUSG00000027843
AA Change: M294R

Domain	Start	End	E-Value	Type
low complexity region	7	19	N/A	INTRINSIC
PTPc	23	291	3.32e-123	SMART
Blast:PTPc	305	502	2e-65	BLAST
PDB:1JEG\|B	605	629	2e-8	PDB

Predicted Effect

probably benign
Transcript: ENSMUST00000146071
AA Change: M294R

PolyPhen 2 Score 0.363 (Sensitivity: 0.90; Specificity: 0.89)

SMART Domains

Protein: ENSMUSP00000122307
Gene: ENSMUSG00000027843
AA Change: M294R

Domain	Start	End	E-Value	Type
low complexity region	7	19	N/A	INTRINSIC
PTPc	23	291	3.32e-123	SMART
Blast:PTPc	305	502	9e-66	BLAST
internal_repeat_1	567	629	1.92e-7	PROSPERO
internal_repeat_1	651	705	1.92e-7	PROSPERO

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000196385

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000197997

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000198701

Meta Mutation Damage Score

0.1379

Coding Region Coverage

1x: 99.2%
3x: 98.5%
10x: 96.9%
20x: 94.1%

Validation Efficiency

99% (90/91)

MGI Phenotype

FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] This gene encodes of member of the non-receptor class 4 subfamily of the protein-tyrosine phosphatase family. The encoded protein is a lymphoid-specific intracellular phosphatase that associates with the molecular adapter protein CBL and may be involved in regulating CBL function in the T-cell receptor signaling pathway. Mutations in this gene may be associated with a range of autoimmune disorders including Type 1 Diabetes, rheumatoid arthritis, systemic lupus erythematosus and Graves' disease. Alternatively spliced transcript variants encoding distinct isoforms have been described. [provided by RefSeq, Mar 2009]
PHENOTYPE: Homozygous null mice display antigen dependent increases in T cell proliferation and cytokine production, enlarged spleens and lymph nodes, increased spontaneous germinal center formation, increased B cell numbers, and increased serum IgG and IgE levels. [provided by MGI curators]

Allele List at MGI

Other mutations in this stock

Total: 81 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
4833420G17Rik	C	T	13: 119,610,573 (GRCm39)		probably benign	Het
Abca9	A	T	11: 110,032,358 (GRCm39)	L753Q	probably damaging	Het
Acvrl1	A	G	15: 101,032,628 (GRCm39)		probably null	Het
Adgrv1	A	T	13: 81,740,704 (GRCm39)	N141K	probably damaging	Het
Aftph	C	T	11: 20,659,619 (GRCm39)		probably null	Het
Aifm1	C	T	X: 47,571,637 (GRCm39)	G371S	probably benign	Het
Aldh3b2	A	G	19: 4,029,433 (GRCm39)	M269V	probably benign	Het
Ankrd44	T	C	1: 54,802,877 (GRCm39)	Y207C	probably damaging	Het
Arhgap15	G	T	2: 44,212,767 (GRCm39)	M412I	probably damaging	Het
Auts2	A	C	5: 131,468,296 (GRCm39)	L783R	probably damaging	Het
Baiap2l1	A	T	5: 144,215,363 (GRCm39)	Y381N	probably damaging	Het
Baiap3	T	C	17: 25,469,243 (GRCm39)	D180G	probably damaging	Het
Cant1	T	C	11: 118,302,038 (GRCm39)	Y93C	probably damaging	Het
Catsperg2	T	C	7: 29,416,423 (GRCm39)	S330G	probably benign	Het
Ccdc73	A	T	2: 104,848,111 (GRCm39)		probably benign	Het
Cdc5l	A	T	17: 45,703,967 (GRCm39)	F752L	possibly damaging	Het
Celsr2	G	T	3: 108,320,689 (GRCm39)	H708N	possibly damaging	Het
Cep170	T	A	1: 176,596,896 (GRCm39)	K487M	possibly damaging	Het
Cerkl	A	T	2: 79,163,867 (GRCm39)	N66K	probably damaging	Het
Cilk1	G	A	9: 78,047,303 (GRCm39)	V68I	probably benign	Het
Clec11a	C	T	7: 43,954,150 (GRCm39)	A268T	probably damaging	Het
Ctnna2	C	A	6: 77,091,912 (GRCm39)		probably null	Het
Diaph3	C	A	14: 87,222,236 (GRCm39)	R416L	probably damaging	Het
Dnmbp	T	A	19: 43,838,315 (GRCm39)	N1170I	probably damaging	Het
Erbb2	G	T	11: 98,318,279 (GRCm39)	C505F	probably damaging	Het
Ercc6	T	A	14: 32,289,479 (GRCm39)	F904L	probably damaging	Het
Exo5	C	T	4: 120,779,514 (GRCm39)	G117D	probably damaging	Het
F2	CAGAAAG	CAG	2: 91,465,302 (GRCm39)		probably benign	Het
Fbxl5	A	G	5: 43,930,896 (GRCm39)	Y64H	probably damaging	Het
Gabra4	T	A	5: 71,798,207 (GRCm39)	M207L	probably damaging	Het
Galnt15	T	C	14: 31,771,786 (GRCm39)	L277P	probably damaging	Het
Gclm	T	C	3: 122,049,261 (GRCm39)		probably null	Het
Gm5493	T	A	17: 22,966,201 (GRCm39)	C29S	possibly damaging	Het
Grik3	A	G	4: 125,564,382 (GRCm39)	T455A	probably benign	Het
Grm3	A	G	5: 9,639,766 (GRCm39)	V93A	probably benign	Het
Hdgfl2	C	T	17: 56,406,217 (GRCm39)	A535V	possibly damaging	Het
Hfm1	A	T	5: 107,049,597 (GRCm39)	S455T	probably damaging	Het
Hmcn1	T	A	1: 150,613,007 (GRCm39)	D1424V	probably benign	Het
Hsd3b6	C	T	3: 98,715,120 (GRCm39)	V91I	probably benign	Het
Igdcc4	G	A	9: 65,030,039 (GRCm39)	S363N	possibly damaging	Het
Intu	T	C	3: 40,647,347 (GRCm39)	V740A	probably benign	Het
Itga2	C	T	13: 114,992,717 (GRCm39)	V838I	probably benign	Het
Kif9	A	G	9: 110,318,965 (GRCm39)	E143G	probably damaging	Het
Kmt2c	T	A	5: 25,614,205 (GRCm39)	I172F	probably benign	Het
Kmt2d	G	A	15: 98,754,043 (GRCm39)	R21W	probably damaging	Het
Mdh1b	A	T	1: 63,750,620 (GRCm39)	D449E	probably benign	Het
Meis1	T	C	11: 18,831,785 (GRCm39)	I418V	probably benign	Het
Nags	T	A	11: 102,037,395 (GRCm39)	M162K	probably damaging	Het
Nufip1	A	G	14: 76,348,413 (GRCm39)	D14G	probably benign	Het
Or2l13	T	A	16: 19,306,227 (GRCm39)	I213N	probably damaging	Het
Or2n1c	A	C	17: 38,519,208 (GRCm39)	E24A	possibly damaging	Het
Or7g28	T	G	9: 19,272,274 (GRCm39)	I126L	probably damaging	Het
Osmr	A	C	15: 6,850,560 (GRCm39)	V681G	probably damaging	Het
Paxip1	G	T	5: 27,971,282 (GRCm39)	Q356K	unknown	Het
Pcdhac1	T	A	18: 37,223,595 (GRCm39)	F136Y	probably damaging	Het
Pla2g6	A	G	15: 79,171,328 (GRCm39)	V699A	probably benign	Het
Plcb3	A	T	19: 6,943,578 (GRCm39)	V107E	probably damaging	Het
Plch1	T	A	3: 63,681,136 (GRCm39)	I164F	probably damaging	Het
Plpp3	A	T	4: 105,052,077 (GRCm39)	I73F	probably damaging	Het
Plscr5	G	A	9: 92,080,574 (GRCm39)	R20Q	probably benign	Het
Prdm10	G	A	9: 31,252,779 (GRCm39)	R504Q	probably damaging	Het
Prss58	T	C	6: 40,874,751 (GRCm39)	Y30C	probably damaging	Het
Psg19	T	A	7: 18,530,894 (GRCm39)	T87S	probably benign	Het
Rai1	T	A	11: 60,079,482 (GRCm39)	M1182K	probably benign	Het
Sez6	T	A	11: 77,867,388 (GRCm39)	V795D	possibly damaging	Het
Shcbp1	A	G	8: 4,789,214 (GRCm39)	V535A	possibly damaging	Het
Skint9	A	G	4: 112,246,447 (GRCm39)	Y222H	probably benign	Het
Slc13a3	T	A	2: 165,253,816 (GRCm39)	I446F	probably damaging	Het
Slc2a3	C	T	6: 122,714,196 (GRCm39)	R57H	probably damaging	Het
Slc44a4	A	G	17: 35,140,219 (GRCm39)	D208G	probably benign	Het
Spata31d1b	A	T	13: 59,863,838 (GRCm39)	N329Y	possibly damaging	Het
Strbp	C	T	2: 37,517,499 (GRCm39)	R192K	probably damaging	Het
Tctn3	A	T	19: 40,600,548 (GRCm39)	L14Q	probably damaging	Het
Tenm2	T	A	11: 36,834,989 (GRCm39)	D2V	probably damaging	Het
Tln2	T	G	9: 67,241,596 (GRCm39)	K1003T	probably benign	Het
Tmem63b	T	C	17: 45,971,800 (GRCm39)	E805G	probably damaging	Het
Trhr	A	T	15: 44,060,980 (GRCm39)	N167Y	probably damaging	Het
Trpc2	A	G	7: 101,744,390 (GRCm39)	R721G	probably benign	Het
Ttn	C	A	2: 76,701,267 (GRCm39)		probably benign	Het
Wdr91	A	G	6: 34,869,288 (GRCm39)	I412T	probably damaging	Het
Zcchc4	T	A	5: 52,953,952 (GRCm39)	S211T	probably benign	Het

Other mutations in Ptpn22

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL01023:Ptpn22	APN	3	103,810,690 (GRCm39)	missense	probably benign	0.01
IGL01373:Ptpn22	APN	3	103,793,520 (GRCm39)	missense	probably damaging	0.99
IGL01943:Ptpn22	APN	3	103,793,652 (GRCm39)	missense	probably benign	0.02
IGL02092:Ptpn22	APN	3	103,784,637 (GRCm39)	missense	probably damaging	1.00
IGL02431:Ptpn22	APN	3	103,810,713 (GRCm39)	missense	probably benign	0.01
IGL02732:Ptpn22	APN	3	103,793,349 (GRCm39)	missense	probably damaging	0.98
IGL02738:Ptpn22	APN	3	103,781,382 (GRCm39)	splice site	probably benign
IGL03406:Ptpn22	APN	3	103,819,332 (GRCm39)	missense	probably benign	0.14
R0490:Ptpn22	UTSW	3	103,793,495 (GRCm39)	missense	probably damaging	1.00
R0494:Ptpn22	UTSW	3	103,767,771 (GRCm39)	missense	probably damaging	1.00
R0626:Ptpn22	UTSW	3	103,767,721 (GRCm39)	start codon destroyed	probably null	1.00
R0743:Ptpn22	UTSW	3	103,809,487 (GRCm39)	missense	probably damaging	1.00
R1441:Ptpn22	UTSW	3	103,781,563 (GRCm39)	missense	probably damaging	1.00
R1610:Ptpn22	UTSW	3	103,809,512 (GRCm39)	splice site	probably null
R1698:Ptpn22	UTSW	3	103,793,114 (GRCm39)	missense	probably benign	0.20
R1785:Ptpn22	UTSW	3	103,781,368 (GRCm39)	missense	probably damaging	0.99
R1786:Ptpn22	UTSW	3	103,781,368 (GRCm39)	missense	probably damaging	0.99
R1919:Ptpn22	UTSW	3	103,784,054 (GRCm39)	critical splice donor site	probably null
R2045:Ptpn22	UTSW	3	103,781,337 (GRCm39)	missense	possibly damaging	0.61
R3977:Ptpn22	UTSW	3	103,780,957 (GRCm39)	splice site	probably benign
R4176:Ptpn22	UTSW	3	103,793,561 (GRCm39)	missense	probably benign	0.00
R4478:Ptpn22	UTSW	3	103,809,380 (GRCm39)	intron	probably benign
R5579:Ptpn22	UTSW	3	103,789,455 (GRCm39)	splice site	probably null
R6022:Ptpn22	UTSW	3	103,793,421 (GRCm39)	missense	probably benign	0.00
R6110:Ptpn22	UTSW	3	103,819,331 (GRCm39)	missense	probably damaging	0.96
R6387:Ptpn22	UTSW	3	103,792,702 (GRCm39)	missense	probably benign	0.18
R7335:Ptpn22	UTSW	3	103,793,335 (GRCm39)	missense	probably damaging	0.97
R7516:Ptpn22	UTSW	3	103,792,854 (GRCm39)	missense	probably benign	0.16
R7523:Ptpn22	UTSW	3	103,819,331 (GRCm39)	missense	probably damaging	0.96
R7583:Ptpn22	UTSW	3	103,809,430 (GRCm39)	missense	probably benign	0.11
R8129:Ptpn22	UTSW	3	103,797,600 (GRCm39)	critical splice donor site	probably null
R8141:Ptpn22	UTSW	3	103,793,643 (GRCm39)	missense	possibly damaging	0.67
R9039:Ptpn22	UTSW	3	103,819,551 (GRCm39)	unclassified	probably benign
R9511:Ptpn22	UTSW	3	103,792,913 (GRCm39)	missense	probably benign	0.37
R9790:Ptpn22	UTSW	3	103,795,842 (GRCm39)	missense	possibly damaging	0.60
R9791:Ptpn22	UTSW	3	103,795,842 (GRCm39)	missense	possibly damaging	0.60
Z1177:Ptpn22	UTSW	3	103,793,016 (GRCm39)	missense	probably benign	0.35

Predicted Primers

PCR Primer
(F):5'- GCCTAACAGTATGGACACATCC -3'
(R):5'- TGACATTCCAATTCAGCTGTGAC -3'

Sequencing Primer
(F):5'- ATAAGCCACCGTTCCTGGGTTTAG -3'
(R):5'- GCCTTTAACCAAAAACATATGGGTAA -3'

Posted On

2016-06-06