Mutagenetix > Incidental Mutation

Incidental Mutation 'R6566:Tymp'

522707

Institutional Source

Beutler Lab

Gene Symbol

Tymp

Ensembl Gene

ENSMUSG00000022615

Gene Name

thymidine phosphorylase

Synonyms

PDECGF, Ecgf1, gliostatin, Pdgfec, 2900072D10Rik, PD-ECGF

MMRRC Submission

044690-MU

Accession Numbers

Essential gene?

Non essential (E-score: 0.000) question?

Stock #

R6566 (G1)

Quality Score

225.009

Status

Validated

Chromosome

Chromosomal Location

89256134-89261242 bp(-) (GRCm39)

Type of Mutation

missense

DNA Base Change (assembly)

T to A at 89257803 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Threonine to Serine at position 421 (T421S)

Ref Sequence

ENSEMBL: ENSMUSP00000023285 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000023285] [ENSMUST00000036987] [ENSMUST00000049968] [ENSMUST00000074552] [ENSMUST00000088717] [ENSMUST00000228111] [ENSMUST00000227834] [ENSMUST00000228977] [ENSMUST00000167643] [ENSMUST00000145259]

AlphaFold

Q99N42

Predicted Effect

probably benign
Transcript: ENSMUST00000023285
AA Change: T421S

PolyPhen 2 Score 0.000 (Sensitivity: 1.00; Specificity: 0.00)

SMART Domains

Protein: ENSMUSP00000023285
Gene: ENSMUSG00000022615
AA Change: T421S

Domain	Start	End	E-Value	Type
low complexity region	2	17	N/A	INTRINSIC
Pfam:Glycos_trans_3N	23	85	1.5e-20	PFAM
Pfam:Glycos_transf_3	95	326	3.1e-50	PFAM
PYNP_C	374	448	6.46e-14	SMART

Predicted Effect

probably benign
Transcript: ENSMUST00000036987

SMART Domains

Protein: ENSMUSP00000036900
Gene: ENSMUSG00000008690

Domain	Start	End	E-Value	Type
Pfam:DUF1032	20	576	N/A	PFAM

Predicted Effect

probably benign
Transcript: ENSMUST00000049968

SMART Domains

Protein: ENSMUSP00000053112
Gene: ENSMUSG00000047394

Domain	Start	End	E-Value	Type
Pfam:SHIPPO-rpt	24	60	1.4e-4	PFAM
Pfam:SHIPPO-rpt	101	129	1.6e-3	PFAM
Pfam:SHIPPO-rpt	138	172	2.7e-6	PFAM
Pfam:SHIPPO-rpt	181	211	2.5e-5	PFAM

Predicted Effect

probably benign
Transcript: ENSMUST00000074552

SMART Domains

Protein: ENSMUSP00000074139
Gene: ENSMUSG00000008690

Domain	Start	End	E-Value	Type
Pfam:DUF1032	51	607	N/A	PFAM

Predicted Effect

probably benign
Transcript: ENSMUST00000088717

SMART Domains

Protein: ENSMUSP00000086095
Gene: ENSMUSG00000008690

Domain	Start	End	E-Value	Type
Pfam:CNDH2_N	11	123	1.2e-48	PFAM
Pfam:CNDH2_M	147	285	2.1e-20	PFAM
Pfam:CNDH2_C	308	598	1.9e-90	PFAM

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000134900

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000136638

Predicted Effect

probably benign
Transcript: ENSMUST00000228111

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000151523

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000147733

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000227203

Predicted Effect

probably benign
Transcript: ENSMUST00000227834

Predicted Effect

probably benign
Transcript: ENSMUST00000228977

Predicted Effect

probably benign
Transcript: ENSMUST00000167643

SMART Domains

Protein: ENSMUSP00000131943
Gene: ENSMUSG00000091780

Domain	Start	End	E-Value	Type
Pfam:SCO1-SenC	52	234	1.4e-47	PFAM

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000147207

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000140665

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000226267

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000228005

Predicted Effect

probably benign
Transcript: ENSMUST00000145259

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000227854

Meta Mutation Damage Score

0.0721

Coding Region Coverage

1x: 100.0%
3x: 99.9%
10x: 99.3%
20x: 97.6%

Validation Efficiency

100% (36/36)

MGI Phenotype

FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] This gene encodes an angiogenic factor which promotes angiogenesis in vivo and stimulates the in vitro growth of a variety of endothelial cells. It has a highly restricted target cell specificity acting only on endothelial cells. Mutations in this gene have been associated with mitochondrial neurogastrointestinal encephalomyopathy. Multiple alternatively spliced transcript variants have been identified. [provided by RefSeq, Apr 2012]
PHENOTYPE: Mice homozygous for a null allele exhibit reduced thymidine phosphorylase activity and increased thymidine levels. [provided by MGI curators]

Allele List at MGI

Other mutations in this stock

Total: 34 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
Abcd2	A	G	15: 91,075,321 (GRCm39)	I164T	probably damaging	Het
Adad2	C	T	8: 120,340,971 (GRCm39)	P164S	probably benign	Het
Adcy3	T	A	12: 4,244,324 (GRCm39)	L278H	probably damaging	Het
Aldh16a1	A	C	7: 44,792,651 (GRCm39)	D670E	probably benign	Het
Bcat1	A	G	6: 144,961,210 (GRCm39)	M131T	probably damaging	Het
Dcstamp	T	C	15: 39,617,732 (GRCm39)	F47S	possibly damaging	Het
Dsg1b	T	C	18: 20,530,499 (GRCm39)	F385L	probably damaging	Het
Exoc8	A	C	8: 125,622,783 (GRCm39)	L528R	probably damaging	Het
Fat4	T	C	3: 39,011,275 (GRCm39)	V2125A	possibly damaging	Het
Gm57859	C	T	11: 113,578,824 (GRCm39)	P73L	probably damaging	Het
Hecw1	T	C	13: 14,471,868 (GRCm39)	D600G	probably damaging	Het
Ice2	G	A	9: 69,323,511 (GRCm39)	V669I	probably benign	Het
Khdc4	C	T	3: 88,618,961 (GRCm39)	T555M	probably damaging	Het
Lsr	T	A	7: 30,671,508 (GRCm39)	Y75F	possibly damaging	Het
Mrps30	C	A	13: 118,523,662 (GRCm39)	V37L	probably benign	Het
Myl10	G	C	5: 136,726,825 (GRCm39)	V70L	probably benign	Het
Or6c217	T	A	10: 129,737,947 (GRCm39)	I211L	probably benign	Het
Pign	A	G	1: 105,565,906 (GRCm39)		probably null	Het
Plcd3	A	G	11: 102,964,626 (GRCm39)	Y582H	probably damaging	Het
Rad9b	A	G	5: 122,490,630 (GRCm39)	W29R	probably damaging	Het
Rb1cc1	T	A	1: 6,319,316 (GRCm39)	F912I	probably benign	Het
Rgs16	C	T	1: 153,619,546 (GRCm39)	S184L	unknown	Het
Runx2	A	G	17: 45,125,375 (GRCm39)		probably null	Het
Serpina1f	T	A	12: 103,659,794 (GRCm39)	I163F	probably damaging	Het
Serpina9	T	C	12: 103,963,296 (GRCm39)	E404G	possibly damaging	Het
Slc4a4	T	C	5: 89,297,192 (GRCm39)	S511P	possibly damaging	Het
Speg	A	T	1: 75,365,107 (GRCm39)	E390V	probably damaging	Het
Syne3	A	G	12: 104,912,966 (GRCm39)	V614A	probably benign	Het
Tmc5	T	C	7: 118,247,067 (GRCm39)	S524P	probably damaging	Het
Tuba4a	G	A	1: 75,193,930 (GRCm39)	T51I	probably damaging	Het
Uvssa	A	G	5: 33,549,520 (GRCm39)	R394G	possibly damaging	Het
Wdr7	T	G	18: 63,888,126 (GRCm39)	I533S	possibly damaging	Het
Zbtb5	G	A	4: 44,994,508 (GRCm39)	T292M	probably damaging	Het
Zfp944	T	G	17: 22,558,726 (GRCm39)	K174Q	possibly damaging	Het

Other mutations in Tymp

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL01013:Tymp	APN	15	89,260,513 (GRCm39)	missense	probably damaging	1.00
IGL03355:Tymp	APN	15	89,259,219 (GRCm39)	missense	possibly damaging	0.80
PIT4142001:Tymp	UTSW	15	89,260,548 (GRCm39)	missense	probably damaging	1.00
R0791:Tymp	UTSW	15	89,259,021 (GRCm39)	missense	probably damaging	1.00
R2219:Tymp	UTSW	15	89,258,965 (GRCm39)	missense	probably benign
R2266:Tymp	UTSW	15	89,258,011 (GRCm39)	missense	probably damaging	1.00
R2267:Tymp	UTSW	15	89,258,011 (GRCm39)	missense	probably damaging	1.00
R2268:Tymp	UTSW	15	89,258,011 (GRCm39)	missense	probably damaging	1.00
R4714:Tymp	UTSW	15	89,260,510 (GRCm39)	missense	probably damaging	1.00
R5247:Tymp	UTSW	15	89,258,567 (GRCm39)	frame shift	probably null
R5248:Tymp	UTSW	15	89,258,567 (GRCm39)	frame shift	probably null
R5249:Tymp	UTSW	15	89,258,567 (GRCm39)	frame shift	probably null
R5741:Tymp	UTSW	15	89,260,639 (GRCm39)	missense	probably benign	0.18
R5810:Tymp	UTSW	15	89,258,534 (GRCm39)	missense	probably damaging	0.99
R5960:Tymp	UTSW	15	89,260,778 (GRCm39)	critical splice donor site	probably null
R6082:Tymp	UTSW	15	89,258,567 (GRCm39)	frame shift	probably null
R6083:Tymp	UTSW	15	89,258,567 (GRCm39)	frame shift	probably null
R6085:Tymp	UTSW	15	89,258,567 (GRCm39)	frame shift	probably null
R6869:Tymp	UTSW	15	89,260,894 (GRCm39)	missense	probably benign
R6969:Tymp	UTSW	15	89,258,251 (GRCm39)	missense	probably benign	0.04
R7019:Tymp	UTSW	15	89,260,484 (GRCm39)	splice site	probably null
Z1177:Tymp	UTSW	15	89,259,767 (GRCm39)	missense	probably damaging	1.00

Predicted Primers

PCR Primer
(F):5'- AGCTGGGTTCGAGACTTAGG -3'
(R):5'- CCCTTAGGCATTGTTGAGTGC -3'

Sequencing Primer
(F):5'- CGAGACTTAGGGCTGTGC -3'
(R):5'- CATTGTTGAGTGCGTCCGAGC -3'

Posted On

2018-06-06