Incidental Mutation 'R0238:Plxnd1'
ID 66091
Institutional Source Beutler Lab
Gene Symbol Plxnd1
Ensembl Gene ENSMUSG00000030123
Gene Name plexin D1
Synonyms b2b553Clo, 6230425C21Rik, b2b1863Clo
MMRRC Submission 038476-MU
Accession Numbers
Essential gene? Essential (E-score: 1.000) question?
Stock # R0238 (G1)
Quality Score 225
Status Not validated
Chromosome 6
Chromosomal Location 115954811-115995005 bp(-) (GRCm38)
Type of Mutation missense
DNA Base Change (assembly) G to T at 115968793 bp (GRCm38)
Zygosity Heterozygous
Amino Acid Change Aspartic acid to Glutamic Acid at position 906 (D906E)
Ref Sequence ENSEMBL: ENSMUSP00000015511 (fasta)
Gene Model predicted gene model for transcript(s): [ENSMUST00000015511]
AlphaFold Q3UH93
Predicted Effect probably benign
Transcript: ENSMUST00000015511
AA Change: D906E

PolyPhen 2 Score 0.001 (Sensitivity: 0.99; Specificity: 0.15)
SMART Domains Protein: ENSMUSP00000015511
Gene: ENSMUSG00000030123
AA Change: D906E

DomainStartEndE-ValueType
signal peptide 1 48 N/A INTRINSIC
Sema 61 531 6.52e-90 SMART
PSI 550 603 6.06e-12 SMART
PSI 703 755 1.06e-2 SMART
Blast:PSI 850 891 9e-20 BLAST
IPT 892 981 4.43e-20 SMART
IPT 982 1068 6.61e-19 SMART
IPT 1070 1149 6.13e-14 SMART
transmembrane domain 1271 1293 N/A INTRINSIC
Pfam:Plexin_cytopl 1345 1888 5e-238 PFAM
Predicted Effect
SMART Domains Protein: ENSMUSP00000115650
Gene: ENSMUSG00000030123
AA Change: D48E

DomainStartEndE-ValueType
Blast:PSI 2 34 1e-13 BLAST
IPT 35 124 4.43e-20 SMART
Blast:IPT 125 177 3e-30 BLAST
Pfam:TIG 180 233 4.6e-6 PFAM
Meta Mutation Damage Score 0.0964 question?
Coding Region Coverage
  • 1x: 98.7%
  • 3x: 97.4%
  • 10x: 92.6%
  • 20x: 76.9%
Validation Efficiency
MGI Phenotype PHENOTYPE: Homozygous null mice display neonatal lethality, thin-walled atria, and vascular abnormalities including abnormal branchial arch artery development, cardiac outflow tract abnormalities, and reduced vascular smooth muscle around some vessels. [provided by MGI curators]
Allele List at MGI
Other mutations in this stock
Total: 86 list
GeneRefVarChr/LocMutationPredicted EffectZygosity
Aar2 T G 2: 156,550,973 (GRCm38) V94G probably benign Het
Acp5 A T 9: 22,129,922 (GRCm38) S70T possibly damaging Het
Adcy1 C G 11: 7,139,162 (GRCm38) N525K possibly damaging Het
Aknad1 A G 3: 108,781,239 (GRCm38) M628V probably benign Het
Alg8 A T 7: 97,383,684 (GRCm38) probably null Het
Cacna1d A G 14: 30,123,496 (GRCm38) V572A probably benign Het
Ccdc158 A C 5: 92,662,118 (GRCm38) M177R probably benign Het
Ccdc191 A T 16: 43,947,496 (GRCm38) R678* probably null Het
Cdkn2d C A 9: 21,290,992 (GRCm38) probably benign Het
Cdx2 G T 5: 147,303,287 (GRCm38) T193K probably damaging Het
Cfap44 T A 16: 44,422,318 (GRCm38) M695K probably benign Het
Cfap70 A C 14: 20,448,605 (GRCm38) S5A probably benign Het
Chd9 T C 8: 90,932,828 (GRCm38) S139P probably damaging Het
Chmp7 A G 14: 69,720,997 (GRCm38) V241A probably damaging Het
Cnga1 A G 5: 72,605,031 (GRCm38) I380T probably damaging Het
Cts6 T A 13: 61,201,819 (GRCm38) E53D probably damaging Het
Dclk3 A T 9: 111,482,628 (GRCm38) N646I probably damaging Het
Dnhd1 A G 7: 105,721,531 (GRCm38) S4673G probably benign Het
Dock4 G T 12: 40,737,540 (GRCm38) S818I probably damaging Het
Dysf C T 6: 84,064,479 (GRCm38) Q156* probably null Het
Fam163b T C 2: 27,112,634 (GRCm38) N117S probably damaging Het
Fam89a A G 8: 124,741,232 (GRCm38) Y114H probably damaging Het
Flcn T C 11: 59,801,076 (GRCm38) N249S probably benign Het
Gm20422 T C 8: 69,766,715 (GRCm38) Y53C probably damaging Het
Gnai1 A G 5: 18,273,550 (GRCm38) S206P probably damaging Het
H1f6 G T 13: 23,696,324 (GRCm38) K153N possibly damaging Het
Hal T C 10: 93,503,482 (GRCm38) S478P possibly damaging Het
Haus3 G A 5: 34,166,256 (GRCm38) P337S possibly damaging Het
Hectd1 T A 12: 51,769,318 (GRCm38) M1324L possibly damaging Het
Hspa9 A T 18: 34,946,646 (GRCm38) Y243* probably null Het
Htr3a T C 9: 48,906,386 (GRCm38) T96A probably benign Het
Ift140 C A 17: 25,045,523 (GRCm38) C557* probably null Het
Jph3 A G 8: 121,753,720 (GRCm38) Q379R possibly damaging Het
Kcnb1 A G 2: 167,104,969 (GRCm38) V653A probably benign Het
Kif14 A G 1: 136,527,393 (GRCm38) E1551G probably damaging Het
Krt17 G A 11: 100,260,878 (GRCm38) R30* probably null Het
Lamb3 A T 1: 193,321,053 (GRCm38) D100V probably damaging Het
Map2 A G 1: 66,416,106 (GRCm38) D1385G probably damaging Het
Map3k21 A G 8: 125,944,970 (GRCm38) D999G possibly damaging Het
Marf1 T C 16: 14,151,283 (GRCm38) I109V probably benign Het
Mcam T G 9: 44,140,205 (GRCm38) probably null Het
Med18 T C 4: 132,460,026 (GRCm38) H99R probably damaging Het
Mettl25 C T 10: 105,826,525 (GRCm38) V195I probably damaging Het
Myh8 A G 11: 67,301,692 (GRCm38) T1466A probably benign Het
Myo1e A T 9: 70,342,126 (GRCm38) I503F possibly damaging Het
Myo3b T A 2: 70,105,425 (GRCm38) C61S probably benign Het
Myorg A T 4: 41,498,912 (GRCm38) N239K probably benign Het
Nf1 A T 11: 79,418,574 (GRCm38) K438M possibly damaging Het
Nlrp9c A G 7: 26,378,012 (GRCm38) S727P possibly damaging Het
Nmbr C T 10: 14,770,395 (GRCm38) Q338* probably null Het
Nt5e A G 9: 88,367,332 (GRCm38) S440G possibly damaging Het
Nubp2 T C 17: 24,884,471 (GRCm38) E144G probably damaging Het
Or12e7 T C 2: 87,458,037 (GRCm38) F291L probably benign Het
Or2ag1b A G 7: 106,689,255 (GRCm38) Y159H probably benign Het
Or52s1 G A 7: 103,212,726 (GRCm38) V289M possibly damaging Het
Otogl T A 10: 107,806,696 (GRCm38) N1291I probably damaging Het
Pa2g4 T C 10: 128,563,642 (GRCm38) K51R probably benign Het
Pcdhb12 A G 18: 37,436,727 (GRCm38) I309V probably benign Het
Pck1 T G 2: 173,157,068 (GRCm38) I373S possibly damaging Het
Pga5 A G 19: 10,669,453 (GRCm38) Y305H probably damaging Het
Ppfia4 T C 1: 134,329,189 (GRCm38) E98G possibly damaging Het
Rab39 G A 9: 53,706,030 (GRCm38) T29I probably damaging Het
Raet1e C A 10: 22,180,862 (GRCm38) H112Q possibly damaging Het
Rars2 T C 4: 34,645,838 (GRCm38) Y252H probably damaging Het
Rars2 A C 4: 34,656,030 (GRCm38) Q421P probably benign Het
Rasa2 A T 9: 96,568,407 (GRCm38) D479E probably damaging Het
Rbl2 A T 8: 91,106,507 (GRCm38) T689S probably damaging Het
Rims4 C T 2: 163,864,025 (GRCm38) V230M probably benign Het
Skp2 A C 15: 9,127,884 (GRCm38) probably null Het
Slc35f4 A T 14: 49,304,256 (GRCm38) I347N possibly damaging Het
Slc4a2 A T 5: 24,436,274 (GRCm38) probably null Het
Slc52a3 T C 2: 152,008,156 (GRCm38) *461Q probably null Het
Slc6a1 G A 6: 114,302,800 (GRCm38) V142I probably benign Het
Susd5 A G 9: 114,096,909 (GRCm38) *620W probably null Het
Timm21 T C 18: 84,947,666 (GRCm38) N239S probably damaging Het
Tmem63c T C 12: 87,075,639 (GRCm38) W404R probably damaging Het
Tnrc6b A G 15: 80,887,864 (GRCm38) D1118G probably damaging Het
Traf2 G C 2: 25,537,126 (GRCm38) A71G possibly damaging Het
Trim54 A G 5: 31,134,119 (GRCm38) M195V probably benign Het
Trip11 C T 12: 101,884,728 (GRCm38) E741K probably damaging Het
Trp73 AGCTGCTGCTGCTGCTGCTG AGCTGCTGCTGCTGCTG 4: 154,062,524 (GRCm38) probably benign Het
Trpm5 G T 7: 143,082,958 (GRCm38) T414N probably damaging Het
Vps51 G T 19: 6,071,437 (GRCm38) S185* probably null Het
Zfp329 G T 7: 12,810,829 (GRCm38) T256K probably damaging Het
Zfp729b A G 13: 67,591,903 (GRCm38) Y748H probably damaging Het
Zfp777 T C 6: 48,024,969 (GRCm38) E773G probably damaging Het
Other mutations in Plxnd1
AlleleSourceChrCoordTypePredicted EffectPPH Score
IGL00764:Plxnd1 APN 6 115,967,972 (GRCm38) missense possibly damaging 0.51
IGL01099:Plxnd1 APN 6 115,969,945 (GRCm38) missense probably benign
IGL01323:Plxnd1 APN 6 115,966,799 (GRCm38) missense possibly damaging 0.81
IGL01382:Plxnd1 APN 6 115,960,527 (GRCm38) missense probably damaging 1.00
IGL01786:Plxnd1 APN 6 115,959,935 (GRCm38) missense probably damaging 1.00
IGL02244:Plxnd1 APN 6 115,978,257 (GRCm38) missense probably benign 0.39
IGL02272:Plxnd1 APN 6 115,993,628 (GRCm38) missense probably damaging 1.00
IGL02293:Plxnd1 APN 6 115,963,913 (GRCm38) missense probably damaging 1.00
IGL02465:Plxnd1 APN 6 115,955,742 (GRCm38) makesense probably null
IGL02873:Plxnd1 APN 6 115,959,976 (GRCm38) missense probably damaging 1.00
IGL03209:Plxnd1 APN 6 115,962,357 (GRCm38) missense probably damaging 1.00
Hiss UTSW 6 115,969,929 (GRCm38) missense possibly damaging 0.94
murmer UTSW 6 115,968,793 (GRCm38) missense probably benign 0.00
mutter UTSW 6 115,968,044 (GRCm38) missense probably benign 0.27
rattle UTSW 6 115,959,794 (GRCm38) missense probably damaging 0.96
R0238:Plxnd1 UTSW 6 115,968,793 (GRCm38) missense probably benign 0.00
R0239:Plxnd1 UTSW 6 115,968,793 (GRCm38) missense probably benign 0.00
R0239:Plxnd1 UTSW 6 115,968,793 (GRCm38) missense probably benign 0.00
R0357:Plxnd1 UTSW 6 115,969,460 (GRCm38) missense probably benign 0.00
R0646:Plxnd1 UTSW 6 115,958,699 (GRCm38) splice site probably benign
R0648:Plxnd1 UTSW 6 115,994,001 (GRCm38) missense possibly damaging 0.86
R0718:Plxnd1 UTSW 6 115,966,638 (GRCm38) missense possibly damaging 0.68
R1116:Plxnd1 UTSW 6 115,967,005 (GRCm38) splice site probably null
R1292:Plxnd1 UTSW 6 115,962,683 (GRCm38) unclassified probably benign
R1715:Plxnd1 UTSW 6 115,968,681 (GRCm38) missense probably benign 0.02
R1760:Plxnd1 UTSW 6 115,967,779 (GRCm38) missense possibly damaging 0.95
R1799:Plxnd1 UTSW 6 115,994,057 (GRCm38) missense probably damaging 1.00
R1817:Plxnd1 UTSW 6 115,980,601 (GRCm38) missense possibly damaging 0.83
R1848:Plxnd1 UTSW 6 115,966,546 (GRCm38) missense probably damaging 1.00
R1851:Plxnd1 UTSW 6 115,963,914 (GRCm38) missense probably damaging 1.00
R1864:Plxnd1 UTSW 6 115,969,441 (GRCm38) splice site probably null
R1865:Plxnd1 UTSW 6 115,969,441 (GRCm38) splice site probably null
R1875:Plxnd1 UTSW 6 115,978,084 (GRCm38) splice site probably null
R1899:Plxnd1 UTSW 6 115,969,363 (GRCm38) missense probably benign
R1913:Plxnd1 UTSW 6 115,978,017 (GRCm38) missense possibly damaging 0.50
R1970:Plxnd1 UTSW 6 115,962,517 (GRCm38) missense probably damaging 1.00
R2007:Plxnd1 UTSW 6 115,967,255 (GRCm38) missense probably damaging 1.00
R2134:Plxnd1 UTSW 6 115,957,548 (GRCm38) missense probably damaging 1.00
R2202:Plxnd1 UTSW 6 115,962,764 (GRCm38) missense probably benign 0.45
R2230:Plxnd1 UTSW 6 115,964,144 (GRCm38) missense probably damaging 1.00
R2267:Plxnd1 UTSW 6 115,962,743 (GRCm38) missense probably benign 0.29
R2427:Plxnd1 UTSW 6 115,967,748 (GRCm38) critical splice donor site probably null
R4108:Plxnd1 UTSW 6 115,959,315 (GRCm38) missense probably damaging 1.00
R4233:Plxnd1 UTSW 6 115,965,953 (GRCm38) missense probably benign 0.30
R4280:Plxnd1 UTSW 6 115,956,095 (GRCm38) splice site probably null
R4280:Plxnd1 UTSW 6 115,956,094 (GRCm38) splice site probably benign
R4346:Plxnd1 UTSW 6 115,977,980 (GRCm38) missense probably benign 0.16
R4439:Plxnd1 UTSW 6 115,993,976 (GRCm38) missense probably damaging 0.99
R4572:Plxnd1 UTSW 6 115,955,756 (GRCm38) missense probably damaging 1.00
R4576:Plxnd1 UTSW 6 115,968,044 (GRCm38) missense probably benign 0.27
R4599:Plxnd1 UTSW 6 115,994,276 (GRCm38) missense probably damaging 1.00
R4614:Plxnd1 UTSW 6 115,972,525 (GRCm38) missense possibly damaging 0.83
R4700:Plxnd1 UTSW 6 115,958,615 (GRCm38) missense probably damaging 1.00
R4705:Plxnd1 UTSW 6 115,958,620 (GRCm38) missense probably damaging 1.00
R4806:Plxnd1 UTSW 6 115,960,855 (GRCm38) missense probably damaging 1.00
R4944:Plxnd1 UTSW 6 115,955,765 (GRCm38) missense probably damaging 1.00
R4977:Plxnd1 UTSW 6 115,994,376 (GRCm38) missense probably damaging 1.00
R5069:Plxnd1 UTSW 6 115,965,901 (GRCm38) missense probably damaging 0.98
R5155:Plxnd1 UTSW 6 115,958,988 (GRCm38) critical splice donor site probably null
R5460:Plxnd1 UTSW 6 115,957,648 (GRCm38) missense probably damaging 1.00
R5729:Plxnd1 UTSW 6 115,965,877 (GRCm38) missense probably damaging 1.00
R5909:Plxnd1 UTSW 6 115,968,688 (GRCm38) missense probably benign 0.00
R5992:Plxnd1 UTSW 6 115,967,787 (GRCm38) critical splice acceptor site probably null
R6129:Plxnd1 UTSW 6 115,978,174 (GRCm38) missense probably damaging 1.00
R6254:Plxnd1 UTSW 6 115,977,960 (GRCm38) missense probably benign 0.01
R6273:Plxnd1 UTSW 6 115,978,492 (GRCm38) missense probably damaging 1.00
R6310:Plxnd1 UTSW 6 115,976,736 (GRCm38) missense possibly damaging 0.94
R6732:Plxnd1 UTSW 6 115,969,929 (GRCm38) missense possibly damaging 0.94
R6857:Plxnd1 UTSW 6 115,993,763 (GRCm38) missense probably benign 0.05
R7243:Plxnd1 UTSW 6 115,972,507 (GRCm38) missense probably benign 0.00
R7282:Plxnd1 UTSW 6 115,960,837 (GRCm38) missense probably damaging 1.00
R7632:Plxnd1 UTSW 6 115,976,639 (GRCm38) missense probably benign
R7699:Plxnd1 UTSW 6 115,959,794 (GRCm38) missense probably damaging 0.96
R7915:Plxnd1 UTSW 6 115,966,918 (GRCm38) missense probably benign 0.00
R8090:Plxnd1 UTSW 6 115,956,617 (GRCm38) missense probably damaging 1.00
R8382:Plxnd1 UTSW 6 115,972,472 (GRCm38) missense probably benign
R8507:Plxnd1 UTSW 6 115,966,905 (GRCm38) missense probably damaging 0.97
R8539:Plxnd1 UTSW 6 115,962,807 (GRCm38) missense possibly damaging 0.94
R8548:Plxnd1 UTSW 6 115,957,597 (GRCm38) missense probably damaging 1.00
R8963:Plxnd1 UTSW 6 115,972,545 (GRCm38) nonsense probably null
R9119:Plxnd1 UTSW 6 115,955,871 (GRCm38) splice site probably benign
R9177:Plxnd1 UTSW 6 115,966,508 (GRCm38) missense probably benign 0.00
R9182:Plxnd1 UTSW 6 115,993,785 (GRCm38) missense probably damaging 0.98
R9185:Plxnd1 UTSW 6 115,957,565 (GRCm38) missense probably damaging 1.00
R9226:Plxnd1 UTSW 6 115,957,563 (GRCm38) missense probably damaging 1.00
R9433:Plxnd1 UTSW 6 115,968,793 (GRCm38) missense probably benign 0.00
R9449:Plxnd1 UTSW 6 115,955,769 (GRCm38) missense probably damaging 1.00
R9451:Plxnd1 UTSW 6 115,963,316 (GRCm38) missense possibly damaging 0.72
R9599:Plxnd1 UTSW 6 115,963,313 (GRCm38) missense possibly damaging 0.78
R9627:Plxnd1 UTSW 6 115,963,313 (GRCm38) missense possibly damaging 0.78
R9644:Plxnd1 UTSW 6 115,963,313 (GRCm38) missense possibly damaging 0.78
R9672:Plxnd1 UTSW 6 115,963,313 (GRCm38) missense possibly damaging 0.78
X0024:Plxnd1 UTSW 6 115,963,310 (GRCm38) missense probably benign 0.02
X0026:Plxnd1 UTSW 6 115,966,784 (GRCm38) missense possibly damaging 0.88
Z1088:Plxnd1 UTSW 6 115,967,510 (GRCm38) missense probably benign 0.02
Predicted Primers
Posted On 2013-08-19