Incidental Mutation 'R6944:Tom1l2'
ID540789
Institutional Source Beutler Lab
Gene Symbol Tom1l2
Ensembl Gene ENSMUSG00000000538
Gene Nametarget of myb1-like 2 (chicken)
SynonymsA730055F12Rik, myb1-like protein 2, 2900016I08Rik
MMRRC Submission
Accession Numbers
Is this an essential gene? Possibly non essential (E-score: 0.392) question?
Stock #R6944 (G1)
Quality Score225.009
Status Validated
Chromosome11
Chromosomal Location60226714-60352905 bp(-) (GRCm38)
Type of Mutationmissense
DNA Base Change (assembly) A to G at 60248991 bp
ZygosityHeterozygous
Amino Acid Change Valine to Alanine at position 239 (V239A)
Ref Sequence ENSEMBL: ENSMUSP00000090736 (fasta)
Gene Model predicted gene model for transcript(s): [ENSMUST00000064019] [ENSMUST00000093046] [ENSMUST00000093048] [ENSMUST00000095254] [ENSMUST00000102682] [ENSMUST00000102683]
Predicted Effect probably damaging
Transcript: ENSMUST00000064019
AA Change: V284A

PolyPhen 2 Score 0.973 (Sensitivity: 0.76; Specificity: 0.96)
SMART Domains Protein: ENSMUSP00000063414
Gene: ENSMUSG00000000538
AA Change: V284A

DomainStartEndE-ValueType
VHS 13 148 1.88e-68 SMART
low complexity region 187 202 N/A INTRINSIC
Pfam:GAT 216 317 1.7e-36 PFAM
Predicted Effect possibly damaging
Transcript: ENSMUST00000093046
AA Change: V234A

PolyPhen 2 Score 0.886 (Sensitivity: 0.82; Specificity: 0.94)
SMART Domains Protein: ENSMUSP00000090734
Gene: ENSMUSG00000000538
AA Change: V234A

DomainStartEndE-ValueType
Pfam:VHS 7 73 1.3e-19 PFAM
low complexity region 137 152 N/A INTRINSIC
Pfam:GAT 166 267 3e-36 PFAM
low complexity region 428 443 N/A INTRINSIC
Predicted Effect probably damaging
Transcript: ENSMUST00000093048
AA Change: V239A

PolyPhen 2 Score 0.978 (Sensitivity: 0.76; Specificity: 0.96)
SMART Domains Protein: ENSMUSP00000090736
Gene: ENSMUSG00000000538
AA Change: V239A

DomainStartEndE-ValueType
VHS 13 154 1.8e-47 SMART
Pfam:GAT 171 272 3e-36 PFAM
low complexity region 433 448 N/A INTRINSIC
Predicted Effect possibly damaging
Transcript: ENSMUST00000095254
AA Change: V284A

PolyPhen 2 Score 0.843 (Sensitivity: 0.83; Specificity: 0.93)
SMART Domains Protein: ENSMUSP00000092884
Gene: ENSMUSG00000000538
AA Change: V284A

DomainStartEndE-ValueType
VHS 13 148 1.88e-68 SMART
low complexity region 187 202 N/A INTRINSIC
Pfam:GAT 216 317 2e-36 PFAM
low complexity region 458 473 N/A INTRINSIC
Predicted Effect possibly damaging
Transcript: ENSMUST00000102682
AA Change: V284A

PolyPhen 2 Score 0.937 (Sensitivity: 0.80; Specificity: 0.94)
SMART Domains Protein: ENSMUSP00000099743
Gene: ENSMUSG00000000538
AA Change: V284A

DomainStartEndE-ValueType
VHS 13 148 1.88e-68 SMART
low complexity region 187 202 N/A INTRINSIC
Pfam:GAT 216 317 1.7e-36 PFAM
Predicted Effect possibly damaging
Transcript: ENSMUST00000102683
AA Change: V284A

PolyPhen 2 Score 0.634 (Sensitivity: 0.87; Specificity: 0.91)
SMART Domains Protein: ENSMUSP00000099744
Gene: ENSMUSG00000000538
AA Change: V284A

DomainStartEndE-ValueType
VHS 13 148 1.88e-68 SMART
low complexity region 187 202 N/A INTRINSIC
Pfam:GAT 232 308 1e-26 PFAM
low complexity region 478 493 N/A INTRINSIC
Predicted Effect probably benign
Transcript: ENSMUST00000133420
SMART Domains Protein: ENSMUSP00000117623
Gene: ENSMUSG00000000538

DomainStartEndE-ValueType
low complexity region 170 185 N/A INTRINSIC
Predicted Effect probably benign
Transcript: ENSMUST00000143124
SMART Domains Protein: ENSMUSP00000121936
Gene: ENSMUSG00000000538

DomainStartEndE-ValueType
low complexity region 150 165 N/A INTRINSIC
Coding Region Coverage
  • 1x: 100.0%
  • 3x: 99.9%
  • 10x: 99.5%
  • 20x: 98.2%
Validation Efficiency 97% (75/77)
MGI Phenotype PHENOTYPE: Mice homozygous for a hypomorphic gene trap allele show malocclusion, kyphosis, hydrocephaly, patchy hair, splenomegaly, high B- and T-cell counts, thrombopenia, impaired humoral responses, a high frequency of infections and tumors, renal cysts, skin lesions, freezing behavior and sporadic bleeding. [provided by MGI curators]
Allele List at MGI
Other mutations in this stock
Total: 76 list
GeneRefVarChr/LocMutationPredicted EffectZygosity
4932415D10Rik A C 10: 82,296,222 I318R probably benign Het
Abcb1b T G 5: 8,813,693 V216G probably damaging Het
Abcb5 T C 12: 118,911,530 R636G probably benign Het
Ago1 G T 4: 126,460,422 F198L possibly damaging Het
Ankrd42 C T 7: 92,619,547 probably null Het
Anxa11 T A 14: 25,874,752 F274I probably damaging Het
Ascc1 T C 10: 60,013,653 L122P probably damaging Het
Bptf T C 11: 107,080,823 S953G probably damaging Het
Chml T A 1: 175,688,161 N65Y probably damaging Het
Clcc1 A G 3: 108,670,968 K262E probably damaging Het
Clhc1 T G 11: 29,569,346 D384E probably damaging Het
Cnot2 G A 10: 116,537,223 probably benign Het
Cntnap1 T C 11: 101,182,904 V627A probably damaging Het
Col6a4 A G 9: 106,072,171 V755A probably damaging Het
Cyp4f18 T A 8: 71,989,894 I406F probably benign Het
Dclre1a T C 19: 56,545,019 E381G possibly damaging Het
Dnah1 A G 14: 31,268,904 Y3153H probably damaging Het
Dnah8 C A 17: 30,794,659 D3791E probably benign Het
Dnah9 T C 11: 66,085,149 E1358G possibly damaging Het
Eef1g G A 19: 8,968,292 R30H probably benign Het
Egln3 A T 12: 54,183,952 I181N probably benign Het
Entpd6 A G 2: 150,763,599 T250A probably damaging Het
Epb41l5 C T 1: 119,609,129 R344Q probably damaging Het
Fam20b T C 1: 156,687,521 D258G probably benign Het
Fbxw18 A T 9: 109,702,587 D21E probably damaging Het
Fbxw21 T C 9: 109,157,535 E92G probably damaging Het
Fzd6 T A 15: 39,025,817 M110K possibly damaging Het
Gm4070 G A 7: 105,901,980 Q622* probably null Het
Gm9268 T C 7: 43,047,969 F817L possibly damaging Het
Golgb1 C T 16: 36,912,113 P574L probably benign Het
Gpr153 A G 4: 152,279,363 E80G probably damaging Het
Kcnt1 T C 2: 25,877,828 probably benign Het
Kcnt2 T G 1: 140,584,065 V962G probably benign Het
Malt1 T C 18: 65,437,920 V109A probably benign Het
March7 A G 2: 60,234,243 I288V probably benign Het
Mief1 C T 15: 80,249,443 R234C probably damaging Het
Morc3 A G 16: 93,870,572 S613G probably benign Het
Myt1 A G 2: 181,797,594 E345G possibly damaging Het
Napb T C 2: 148,706,969 T133A probably benign Het
Nwd1 T C 8: 72,653,534 V16A possibly damaging Het
Oas1f G A 5: 120,848,184 E67K probably benign Het
Obscn T C 11: 59,038,930 K5153R probably damaging Het
Olfr1441 G T 19: 12,423,264 M318I probably benign Het
Olfr154 C T 2: 85,663,851 M194I probably benign Het
Olfr212 T C 6: 116,515,830 F18L possibly damaging Het
Olfr317 T A 11: 58,732,242 S308C possibly damaging Het
Pdcd2 T C 17: 15,525,370 N185S possibly damaging Het
Pgap1 A T 1: 54,530,161 W349R probably damaging Het
Prpf39 T A 12: 65,042,680 V64E probably benign Het
Ptpn13 T A 5: 103,476,991 W54R probably null Het
Rbms3 G T 9: 117,110,105 P29Q probably damaging Het
Rnf123 A G 9: 108,063,623 L679P probably benign Het
Samd4 T A 14: 47,016,635 D84E possibly damaging Het
Scarf1 T C 11: 75,522,206 V426A probably benign Het
Slc12a1 A G 2: 125,160,534 N145D probably damaging Het
Slc2a6 A T 2: 27,026,064 M99K probably damaging Het
Slc34a2 A T 5: 53,064,883 I306L probably benign Het
Slx4ip A G 2: 137,068,275 K397E probably damaging Het
Smr3a C T 5: 88,008,090 probably benign Het
Spef2 T C 15: 9,592,749 E1502G probably damaging Het
Sri A T 5: 8,063,365 T119S probably benign Het
Synrg T A 11: 84,025,086 L1085H probably damaging Het
Taf7 A T 18: 37,642,857 L219H probably damaging Het
Tmco3 T A 8: 13,303,729 V347E probably damaging Het
Tmem8b A T 4: 43,674,465 I250F probably damaging Het
Trpm1 T A 7: 64,243,433 M1011K probably damaging Het
Tspan9 A T 6: 127,965,806 Y153N probably benign Het
Ttll11 T C 2: 35,752,294 H675R probably benign Het
Unc50 C T 1: 37,432,662 T131M probably damaging Het
Vgf T A 5: 137,032,352 I456N probably damaging Het
Vmn1r223 A G 13: 23,249,313 I26V unknown Het
Vmn1r39 T C 6: 66,805,221 M1V probably null Het
Vmn2r111 T C 17: 22,559,051 N549S possibly damaging Het
Vmn2r14 T C 5: 109,216,059 T664A probably benign Het
Vmn2r14 G A 5: 109,216,274 T592I probably benign Het
Vmn2r96 T A 17: 18,597,629 F489L probably benign Het
Other mutations in Tom1l2
AlleleSourceChrCoordTypePredicted EffectPPH Score
IGL00648:Tom1l2 APN 11 60261116 missense possibly damaging 0.93
IGL01459:Tom1l2 APN 11 60280269 missense probably damaging 1.00
IGL02990:Tom1l2 APN 11 60230236 missense probably damaging 1.00
R0025:Tom1l2 UTSW 11 60230134 missense probably damaging 0.96
R0025:Tom1l2 UTSW 11 60230134 missense probably damaging 0.96
R4456:Tom1l2 UTSW 11 60352815 unclassified probably benign
R4627:Tom1l2 UTSW 11 60242707 critical splice donor site probably null
R4695:Tom1l2 UTSW 11 60270433 missense probably damaging 0.98
R4713:Tom1l2 UTSW 11 60270433 missense probably damaging 0.98
R4731:Tom1l2 UTSW 11 60270433 missense probably damaging 0.98
R4788:Tom1l2 UTSW 11 60249018 missense probably damaging 1.00
R4937:Tom1l2 UTSW 11 60258918 missense probably damaging 1.00
R5320:Tom1l2 UTSW 11 60242822 nonsense probably null
R5367:Tom1l2 UTSW 11 60241808 missense probably benign 0.00
R6158:Tom1l2 UTSW 11 60232927 missense probably damaging 1.00
R7335:Tom1l2 UTSW 11 60245165 missense probably benign 0.00
R7356:Tom1l2 UTSW 11 60249027 missense probably damaging 0.99
R7376:Tom1l2 UTSW 11 60261200 missense probably benign
R7544:Tom1l2 UTSW 11 60280214 small deletion probably benign
R7760:Tom1l2 UTSW 11 60274965 missense probably benign
Z1186:Tom1l2 UTSW 11 60241856 missense probably benign 0.01
Z1187:Tom1l2 UTSW 11 60241856 missense probably benign 0.01
Z1188:Tom1l2 UTSW 11 60241856 missense probably benign 0.01
Z1189:Tom1l2 UTSW 11 60241856 missense probably benign 0.01
Z1190:Tom1l2 UTSW 11 60241856 missense probably benign 0.01
Z1191:Tom1l2 UTSW 11 60241856 missense probably benign 0.01
Z1192:Tom1l2 UTSW 11 60241856 missense probably benign 0.01
Predicted Primers PCR Primer
(F):5'- TCCAAGAGCAAATGAGCATCTC -3'
(R):5'- ACAAGCATGTACTCCTTCTGTG -3'

Sequencing Primer
(F):5'- GCAAATGAGCATCTCTGATGAC -3'
(R):5'- CTGTGACTTTCAAGAAACAGTGC -3'
Posted On2018-11-28