Incidental Mutation 'R5529:Tdp2'
ID 433593
Institutional Source Beutler Lab
Gene Symbol Tdp2
Ensembl Gene ENSMUSG00000035958
Gene Name tyrosyl-DNA phosphodiesterase 2
Synonyms D13Ertd656e, Ttrap
MMRRC Submission 043087-MU
Accession Numbers
Essential gene? Possibly essential (E-score: 0.705) question?
Stock # R5529 (G1)
Quality Score 225
Status Not validated
Chromosome 13
Chromosomal Location 25015662-25026136 bp(+) (GRCm39)
Type of Mutation nonsense
DNA Base Change (assembly) A to T at 25022219 bp (GRCm39)
Zygosity Heterozygous
Amino Acid Change Lysine to Stop codon at position 213 (K213*)
Ref Sequence ENSEMBL: ENSMUSP00000035660 (fasta)
Gene Model predicted gene model for transcript(s): [ENSMUST00000038039] [ENSMUST00000225138]
AlphaFold Q9JJX7
PDB Structure Mus Musculus Tdp2 Bound to dAMP and Mg2+ [X-RAY DIFFRACTION]
Mus Musculus Tdp2-DNA Substrate Analog (5'-6-aminohexanol) Complex [X-RAY DIFFRACTION]
Mus Musculus Tdp2 reaction product (5'-phosphorylated DNA)-Mg2+ complex at 1.5 Angstroms resolution [X-RAY DIFFRACTION]
Mus Musculus Tdp2 excluded ssDNA complex [X-RAY DIFFRACTION]
Mus Musculus Tdp2 reaction product complex with 5'-phosphorylated RNA/DNA, glycerol, and Mg2+ [X-RAY DIFFRACTION]
Predicted Effect probably null
Transcript: ENSMUST00000038039
AA Change: K213*
SMART Domains Protein: ENSMUSP00000035660
Gene: ENSMUSG00000035958
AA Change: K213*

DomainStartEndE-ValueType
low complexity region 9 30 N/A INTRINSIC
Pfam:Exo_endo_phos 127 359 3.9e-20 PFAM
Predicted Effect noncoding transcript
Transcript: ENSMUST00000130788
Predicted Effect noncoding transcript
Transcript: ENSMUST00000224542
Predicted Effect probably benign
Transcript: ENSMUST00000225138
Predicted Effect noncoding transcript
Transcript: ENSMUST00000225490
Predicted Effect noncoding transcript
Transcript: ENSMUST00000226055
Coding Region Coverage
  • 1x: 98.7%
  • 3x: 97.5%
  • 10x: 95.7%
  • 20x: 92.5%
Validation Efficiency
MGI Phenotype FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] This gene encodes a member of a superfamily of divalent cation-dependent phosphodiesterases. The encoded protein associates with CD40, tumor necrosis factor (TNF) receptor-75 and TNF receptor associated factors (TRAFs), and inhibits nuclear factor-kappa-B activation. This protein has sequence and structural similarities with APE1 endonuclease, which is involved in both DNA repair and the activation of transcription factors. [provided by RefSeq, Jul 2008]
PHENOTYPE: Homozygous mutant mice carrying a gene trap insertion into intron 5 but subsequently shown to harbor a partial duplication of the wild-type allele at the ES cell level are born with a normal Mendelian distribution. [provided by MGI curators]
Allele List at MGI
Other mutations in this stock
Total: 48 list
GeneRefVarChr/LocMutationPredicted EffectZygosity
Abca12 T C 1: 71,304,040 (GRCm39) Y2079C probably damaging Het
Alg2 T C 4: 47,472,101 (GRCm39) R236G probably damaging Het
Alpl T A 4: 137,473,733 (GRCm39) N323I probably damaging Het
Anxa3 A G 5: 96,976,238 (GRCm39) E172G probably benign Het
Atp8a2 A G 14: 60,031,314 (GRCm39) probably null Het
Cadps T C 14: 12,454,285 (GRCm38) K1078E probably damaging Het
Ccn5 T C 2: 163,667,279 (GRCm39) probably null Het
Ces2e G T 8: 105,656,543 (GRCm39) V258L probably benign Het
Daam2 A G 17: 49,766,085 (GRCm39) F1041S probably benign Het
Dcstamp A G 15: 39,617,932 (GRCm39) I114V probably benign Het
Ddhd2 C T 8: 26,229,587 (GRCm39) R496Q probably benign Het
Dnhd1 G A 7: 105,352,416 (GRCm39) R2523Q probably damaging Het
Eml6 T A 11: 29,714,126 (GRCm39) R1335S probably benign Het
F12 T C 13: 55,569,872 (GRCm39) N102S probably benign Het
Fbn1 G A 2: 125,215,870 (GRCm39) L712F probably benign Het
Fgf1 G T 18: 38,991,657 (GRCm39) F37L probably damaging Het
Fgf14 T A 14: 124,217,867 (GRCm39) H212L probably damaging Het
Gm10036 A T 18: 15,965,858 (GRCm39) Q3L probably benign Het
Hivep1 T C 13: 42,310,126 (GRCm39) F789L possibly damaging Het
Hspg2 C A 4: 137,279,139 (GRCm39) T3074N probably damaging Het
Katnb1 C T 8: 95,824,300 (GRCm39) R495C probably damaging Het
Kdm5b C T 1: 134,515,741 (GRCm39) H122Y probably damaging Het
Ky C T 9: 102,419,274 (GRCm39) S427L probably benign Het
Med9 T G 11: 59,851,486 (GRCm39) V105G probably benign Het
Ndufa11 T A 17: 57,028,059 (GRCm39) V43D probably damaging Het
Nlrp4b T A 7: 10,448,873 (GRCm39) C359S possibly damaging Het
Or12k8 T A 2: 36,974,921 (GRCm39) I280F possibly damaging Het
Or51e1 A T 7: 102,358,900 (GRCm39) K145* probably null Het
Paxbp1 T A 16: 90,827,401 (GRCm39) Y478F possibly damaging Het
Pole G A 5: 110,480,332 (GRCm39) E92K probably benign Het
Prom1 G T 5: 44,184,110 (GRCm39) L449M probably damaging Het
Psg28 G A 7: 18,164,373 (GRCm39) T113I probably benign Het
Reln A C 5: 22,137,713 (GRCm39) V2493G possibly damaging Het
Rp1 C T 1: 4,416,055 (GRCm39) V1686I probably benign Het
Setbp1 T C 18: 79,129,867 (GRCm39) I122V probably damaging Het
Setd5 T C 6: 113,098,529 (GRCm39) Y721H probably damaging Het
Shroom1 T C 11: 53,354,749 (GRCm39) F223S probably damaging Het
Son T A 16: 91,452,354 (GRCm39) L367Q probably damaging Het
Spred2 G T 11: 19,971,301 (GRCm39) D363Y probably damaging Het
Tbc1d8 T G 1: 39,411,836 (GRCm39) Y1000S probably benign Het
Tmem89 T C 9: 108,744,545 (GRCm39) I146T probably damaging Het
Vhl T C 6: 113,606,424 (GRCm39) V147A probably benign Het
Vmn2r23 C T 6: 123,690,410 (GRCm39) L429F probably benign Het
Vrk2 T C 11: 26,449,036 (GRCm39) D186G probably damaging Het
Zbtb40 A G 4: 136,710,474 (GRCm39) F1222L possibly damaging Het
Zfp266 A G 9: 20,418,030 (GRCm39) S7P probably damaging Het
Zfp472 T A 17: 33,197,407 (GRCm39) I494K possibly damaging Het
Zfp655 A G 5: 145,181,546 (GRCm39) E468G probably damaging Het
Other mutations in Tdp2
AlleleSourceChrCoordTypePredicted EffectPPH Score
IGL00775:Tdp2 APN 13 25,024,521 (GRCm39) missense probably damaging 1.00
IGL01376:Tdp2 APN 13 25,020,932 (GRCm39) splice site probably null
IGL02346:Tdp2 APN 13 25,025,335 (GRCm39) missense possibly damaging 0.86
IGL02455:Tdp2 APN 13 25,025,245 (GRCm39) missense probably damaging 0.97
R0008:Tdp2 UTSW 13 25,025,333 (GRCm39) splice site probably null
R0008:Tdp2 UTSW 13 25,025,333 (GRCm39) splice site probably null
R0164:Tdp2 UTSW 13 25,022,222 (GRCm39) missense probably damaging 1.00
R0164:Tdp2 UTSW 13 25,022,222 (GRCm39) missense probably damaging 1.00
R0179:Tdp2 UTSW 13 25,024,431 (GRCm39) missense possibly damaging 0.46
R1939:Tdp2 UTSW 13 25,025,260 (GRCm39) missense probably benign 0.07
R3807:Tdp2 UTSW 13 25,015,776 (GRCm39) nonsense probably null
R3955:Tdp2 UTSW 13 25,020,082 (GRCm39) missense probably benign 0.00
R4943:Tdp2 UTSW 13 25,022,248 (GRCm39) missense probably benign 0.02
R5044:Tdp2 UTSW 13 25,015,809 (GRCm39) missense probably benign 0.00
R5827:Tdp2 UTSW 13 25,015,836 (GRCm39) missense probably damaging 0.99
R6235:Tdp2 UTSW 13 25,024,378 (GRCm39) nonsense probably null
R6326:Tdp2 UTSW 13 25,024,540 (GRCm39) missense probably damaging 1.00
R7091:Tdp2 UTSW 13 25,022,207 (GRCm39) missense probably damaging 1.00
R7244:Tdp2 UTSW 13 25,025,284 (GRCm39) missense probably benign 0.02
R7341:Tdp2 UTSW 13 25,016,059 (GRCm39) missense probably benign 0.00
R8010:Tdp2 UTSW 13 25,020,010 (GRCm39) missense probably damaging 1.00
R9203:Tdp2 UTSW 13 25,020,916 (GRCm39) nonsense probably null
Z1177:Tdp2 UTSW 13 25,025,234 (GRCm39) missense probably benign 0.00
Predicted Primers PCR Primer
(F):5'- GAGATTAAAGGCGTGTGTACCACC -3'
(R):5'- CCTTTAATCCCAGCACTCGGG -3'

Sequencing Primer
(F):5'- CTTGTAGCAGCCCTTCTTGAGAAAG -3'
(R):5'- CCTGGTCTACAAAGTGAGTTCCAG -3'
Posted On 2016-10-06