Incidental Mutation 'R4326:Lingo2'
ID 324354
Institutional Source Beutler Lab
Gene Symbol Lingo2
Ensembl Gene ENSMUSG00000045083
Gene Name leucine rich repeat and Ig domain containing 2
Synonyms Lrrn6c, LERN3, B230217C06Rik
MMRRC Submission 041096-MU
Accession Numbers
Essential gene? Probably non essential (E-score: 0.109) question?
Stock # R4326 (G1)
Quality Score 225
Status Validated
Chromosome 4
Chromosomal Location 35706647-36951747 bp(-) (GRCm39)
Type of Mutation missense
DNA Base Change (assembly) T to A at 35708462 bp (GRCm39)
Zygosity Heterozygous
Amino Acid Change Aspartic acid to Valine at position 506 (D506V)
Ref Sequence ENSEMBL: ENSMUSP00000130423 (fasta)
Gene Model predicted gene model for transcript(s): [ENSMUST00000065173] [ENSMUST00000098151] [ENSMUST00000108122] [ENSMUST00000108124] [ENSMUST00000164772]
AlphaFold Q3URE9
Predicted Effect probably damaging
Transcript: ENSMUST00000065173
AA Change: D506V

PolyPhen 2 Score 0.995 (Sensitivity: 0.68; Specificity: 0.97)
SMART Domains Protein: ENSMUSP00000069772
Gene: ENSMUSG00000045083
AA Change: D506V

DomainStartEndE-ValueType
LRRNT 27 61 1.86e-4 SMART
LRR 80 103 5.89e1 SMART
LRR_TYP 104 127 8.22e-2 SMART
LRR 128 151 6.57e-1 SMART
LRR 152 175 1.31e0 SMART
LRR 176 199 4.83e0 SMART
LRR 200 223 1.62e2 SMART
low complexity region 249 263 N/A INTRINSIC
LRR 272 295 2.17e-1 SMART
LRR 296 319 8.01e0 SMART
LRR_TYP 320 343 7.15e-2 SMART
LRRCT 355 408 3.7e-2 SMART
IGc2 423 490 9.99e-13 SMART
transmembrane domain 543 565 N/A INTRINSIC
Predicted Effect probably damaging
Transcript: ENSMUST00000098151
AA Change: D506V

PolyPhen 2 Score 0.995 (Sensitivity: 0.68; Specificity: 0.97)
SMART Domains Protein: ENSMUSP00000095754
Gene: ENSMUSG00000045083
AA Change: D506V

DomainStartEndE-ValueType
LRRNT 27 61 1.86e-4 SMART
LRR 80 103 5.89e1 SMART
LRR_TYP 104 127 8.22e-2 SMART
LRR 128 151 6.57e-1 SMART
LRR 152 175 1.31e0 SMART
LRR 176 199 4.83e0 SMART
LRR 200 223 1.62e2 SMART
low complexity region 249 263 N/A INTRINSIC
LRR 272 295 2.17e-1 SMART
LRR 296 319 8.01e0 SMART
LRR_TYP 320 343 7.15e-2 SMART
LRRCT 355 408 3.7e-2 SMART
IGc2 423 490 9.99e-13 SMART
transmembrane domain 543 565 N/A INTRINSIC
Predicted Effect probably damaging
Transcript: ENSMUST00000108122
AA Change: D506V

PolyPhen 2 Score 0.995 (Sensitivity: 0.68; Specificity: 0.97)
SMART Domains Protein: ENSMUSP00000103757
Gene: ENSMUSG00000045083
AA Change: D506V

DomainStartEndE-ValueType
LRRNT 27 61 1.86e-4 SMART
LRR 80 103 5.89e1 SMART
LRR_TYP 104 127 8.22e-2 SMART
LRR 128 151 6.57e-1 SMART
LRR 152 175 1.31e0 SMART
LRR 176 199 4.83e0 SMART
LRR 200 223 1.62e2 SMART
low complexity region 249 263 N/A INTRINSIC
LRR 272 295 2.17e-1 SMART
LRR 296 319 8.01e0 SMART
LRR_TYP 320 343 7.15e-2 SMART
LRRCT 355 408 3.7e-2 SMART
IGc2 423 490 9.99e-13 SMART
transmembrane domain 543 565 N/A INTRINSIC
Predicted Effect probably damaging
Transcript: ENSMUST00000108124
AA Change: D506V

PolyPhen 2 Score 0.995 (Sensitivity: 0.68; Specificity: 0.97)
SMART Domains Protein: ENSMUSP00000103759
Gene: ENSMUSG00000045083
AA Change: D506V

DomainStartEndE-ValueType
LRRNT 27 61 1.86e-4 SMART
LRR 80 103 5.89e1 SMART
LRR_TYP 104 127 8.22e-2 SMART
LRR 128 151 6.57e-1 SMART
LRR 152 175 1.31e0 SMART
LRR 176 199 4.83e0 SMART
LRR 200 223 1.62e2 SMART
low complexity region 249 263 N/A INTRINSIC
LRR 272 295 2.17e-1 SMART
LRR 296 319 8.01e0 SMART
LRR_TYP 320 343 7.15e-2 SMART
LRRCT 355 408 3.7e-2 SMART
IGc2 423 490 9.99e-13 SMART
transmembrane domain 543 565 N/A INTRINSIC
Predicted Effect probably damaging
Transcript: ENSMUST00000164772
AA Change: D506V

PolyPhen 2 Score 0.995 (Sensitivity: 0.68; Specificity: 0.97)
SMART Domains Protein: ENSMUSP00000130423
Gene: ENSMUSG00000045083
AA Change: D506V

DomainStartEndE-ValueType
LRRNT 27 61 1.86e-4 SMART
LRR 80 103 5.89e1 SMART
LRR_TYP 104 127 8.22e-2 SMART
LRR 128 151 6.57e-1 SMART
LRR 152 175 1.31e0 SMART
LRR 176 199 4.83e0 SMART
LRR 200 223 1.62e2 SMART
low complexity region 249 263 N/A INTRINSIC
LRR 272 295 2.17e-1 SMART
LRR 296 319 8.01e0 SMART
LRR_TYP 320 343 7.15e-2 SMART
LRRCT 355 408 3.7e-2 SMART
IGc2 423 490 9.99e-13 SMART
transmembrane domain 543 565 N/A INTRINSIC
Meta Mutation Damage Score 0.1896 question?
Coding Region Coverage
  • 1x: 99.3%
  • 3x: 98.7%
  • 10x: 97.3%
  • 20x: 95.4%
Validation Efficiency 98% (57/58)
Allele List at MGI
Other mutations in this stock
Total: 50 list
GeneRefVarChr/LocMutationPredicted EffectZygosity
Abcd3 A G 3: 121,555,119 (GRCm39) V616A probably benign Het
Abhd17a A G 10: 80,419,884 (GRCm39) S241P probably benign Het
Adamts15 T C 9: 30,815,814 (GRCm39) S681G probably benign Het
Arap2 A T 5: 62,779,206 (GRCm39) H1461Q possibly damaging Het
Armc3 A G 2: 19,305,284 (GRCm39) K681E probably damaging Het
Arrdc5 T C 17: 56,601,420 (GRCm39) E235G possibly damaging Het
Atxn1 T C 13: 46,119,443 (GRCm39) probably benign Het
C9orf72 T A 4: 35,225,985 (GRCm39) probably benign Het
Capn13 C A 17: 73,638,103 (GRCm39) K433N probably benign Het
Ccdc113 G A 8: 96,283,896 (GRCm39) M323I probably benign Het
Cd55 A T 1: 130,380,220 (GRCm39) C253S probably damaging Het
Cyp2j8 T A 4: 96,395,566 (GRCm39) T20S probably benign Het
Dnah8 G A 17: 30,971,066 (GRCm39) V2707M probably benign Het
Erlec1 C T 11: 30,899,972 (GRCm39) E166K probably benign Het
Fastkd2 A G 1: 63,791,516 (GRCm39) K675E probably benign Het
Gid4 G A 11: 60,308,662 (GRCm39) V61M possibly damaging Het
Glt28d2 G A 3: 85,779,393 (GRCm39) Q27* probably null Het
Ipo8 A T 6: 148,701,662 (GRCm39) probably benign Het
Isx A G 8: 75,600,284 (GRCm39) I6V probably benign Het
Itsn1 A G 16: 91,650,743 (GRCm39) probably benign Het
Klhl40 A G 9: 121,607,956 (GRCm39) D372G probably benign Het
Krt80 C T 15: 101,250,189 (GRCm39) V19M possibly damaging Het
Lmo7 A T 14: 102,137,510 (GRCm39) E504D possibly damaging Het
Lpcat4 G A 2: 112,076,737 (GRCm39) E454K probably benign Het
Macf1 C T 4: 123,276,005 (GRCm39) A4176T probably damaging Het
Noxo1 G A 17: 24,917,937 (GRCm39) R81H probably benign Het
Or10ab4 T C 7: 107,654,362 (GRCm39) Y58H probably damaging Het
Or7g34 T A 9: 19,478,318 (GRCm39) M121L possibly damaging Het
Pafah1b1 T C 11: 74,573,066 (GRCm39) T333A probably benign Het
Pak1ip1 A G 13: 41,158,232 (GRCm39) D35G possibly damaging Het
Pak3 T C X: 142,516,205 (GRCm39) probably null Het
Pcdhb9 A T 18: 37,534,875 (GRCm39) S290C probably benign Het
Pcdhb9 G T 18: 37,534,876 (GRCm39) S290I probably benign Het
Ppp2r2d T A 7: 138,470,214 (GRCm39) V25D probably damaging Het
Prdm15 G T 16: 97,607,715 (GRCm39) N709K probably damaging Het
Ptprs C A 17: 56,754,468 (GRCm39) A191S possibly damaging Het
Rrs1 G T 1: 9,616,566 (GRCm39) R273L possibly damaging Het
Sin3a T C 9: 57,002,642 (GRCm39) L178P probably damaging Het
Slc13a1 A G 6: 24,103,478 (GRCm39) V355A probably benign Het
Spen T G 4: 141,204,683 (GRCm39) N1315H unknown Het
Ssrp1 A G 2: 84,870,561 (GRCm39) probably benign Het
St7 G A 6: 17,819,287 (GRCm39) V64M probably damaging Het
Syne2 C A 12: 75,999,516 (GRCm39) A2304E probably damaging Het
Tcf25 T A 8: 124,127,882 (GRCm39) L622* probably null Het
Tmem107 G T 11: 68,962,301 (GRCm39) probably null Het
Tmem62 T A 2: 120,810,991 (GRCm39) N156K probably damaging Het
Wdr90 G T 17: 26,072,705 (GRCm39) R884S probably benign Het
Zfp184 T C 13: 22,144,072 (GRCm39) Y593H probably damaging Het
Zfp934 T G 13: 62,665,373 (GRCm39) N312H probably benign Het
Zfta A G 19: 7,398,591 (GRCm39) probably benign Het
Other mutations in Lingo2
AlleleSourceChrCoordTypePredicted EffectPPH Score
IGL01861:Lingo2 APN 4 35,709,526 (GRCm39) missense probably benign 0.31
IGL02532:Lingo2 APN 4 35,709,171 (GRCm39) missense possibly damaging 0.69
IGL02999:Lingo2 APN 4 35,708,744 (GRCm39) missense probably damaging 1.00
R0077:Lingo2 UTSW 4 35,708,375 (GRCm39) missense possibly damaging 0.51
R0669:Lingo2 UTSW 4 35,709,120 (GRCm39) missense probably benign 0.00
R1195:Lingo2 UTSW 4 35,708,538 (GRCm39) missense probably damaging 1.00
R1195:Lingo2 UTSW 4 35,708,538 (GRCm39) missense probably damaging 1.00
R1195:Lingo2 UTSW 4 35,708,538 (GRCm39) missense probably damaging 1.00
R1403:Lingo2 UTSW 4 35,709,420 (GRCm39) missense possibly damaging 0.83
R1403:Lingo2 UTSW 4 35,709,420 (GRCm39) missense possibly damaging 0.83
R1552:Lingo2 UTSW 4 35,708,315 (GRCm39) missense probably damaging 0.99
R2066:Lingo2 UTSW 4 35,709,179 (GRCm39) missense probably benign
R4207:Lingo2 UTSW 4 35,709,810 (GRCm39) missense probably benign 0.01
R4208:Lingo2 UTSW 4 35,709,810 (GRCm39) missense probably benign 0.01
R4327:Lingo2 UTSW 4 35,708,462 (GRCm39) missense probably damaging 1.00
R4328:Lingo2 UTSW 4 35,708,462 (GRCm39) missense probably damaging 1.00
R4474:Lingo2 UTSW 4 35,708,810 (GRCm39) missense probably benign
R6801:Lingo2 UTSW 4 35,709,566 (GRCm39) missense probably damaging 0.97
R7343:Lingo2 UTSW 4 35,709,450 (GRCm39) missense possibly damaging 0.88
R7629:Lingo2 UTSW 4 35,708,675 (GRCm39) missense possibly damaging 0.88
R7740:Lingo2 UTSW 4 35,709,248 (GRCm39) missense probably damaging 0.98
R7867:Lingo2 UTSW 4 35,709,302 (GRCm39) missense probably benign
R7995:Lingo2 UTSW 4 35,709,425 (GRCm39) missense probably damaging 1.00
R8909:Lingo2 UTSW 4 35,708,349 (GRCm39) missense probably damaging 0.99
R9418:Lingo2 UTSW 4 35,709,035 (GRCm39) missense probably benign 0.38
R9612:Lingo2 UTSW 4 35,708,450 (GRCm39) missense probably damaging 0.99
R9633:Lingo2 UTSW 4 35,709,885 (GRCm39) missense
R9764:Lingo2 UTSW 4 35,709,750 (GRCm39) missense possibly damaging 0.55
R9775:Lingo2 UTSW 4 35,708,781 (GRCm39) missense probably benign 0.16
Z1177:Lingo2 UTSW 4 35,709,656 (GRCm39) missense probably benign 0.17
Predicted Primers PCR Primer
(F):5'- GCACATACTCAAGGTCAATGCTG -3'
(R):5'- GCGTTTTATCACCACCAAGTCC -3'

Sequencing Primer
(F):5'- ACTCAAGGTCAATGCTGTTTTTG -3'
(R):5'- GTTTTATCACCACCAAGTCCAACGG -3'
Posted On 2015-06-24