Incidental Mutation 'R3806:Lingo4'
ID 274580
Institutional Source Beutler Lab
Gene Symbol Lingo4
Ensembl Gene ENSMUSG00000044505
Gene Name leucine rich repeat and Ig domain containing 4
Synonyms LERN4, Lrrn6d, A530050P17Rik
MMRRC Submission 040763-MU
Accession Numbers
Essential gene? Probably non essential (E-score: 0.061) question?
Stock # R3806 (G1)
Quality Score 225
Status Not validated
Chromosome 3
Chromosomal Location 94306526-94311820 bp(+) (GRCm39)
Type of Mutation missense
DNA Base Change (assembly) A to G at 94309407 bp (GRCm39)
Zygosity Heterozygous
Amino Acid Change Aspartic acid to Glycine at position 115 (D115G)
Ref Sequence ENSEMBL: ENSMUSP00000058050 (fasta)
Gene Model predicted gene model for transcript(s): [ENSMUST00000029795] [ENSMUST00000050975] [ENSMUST00000197040] [ENSMUST00000200009]
AlphaFold no structure available at present
Predicted Effect probably benign
Transcript: ENSMUST00000029795
SMART Domains Protein: ENSMUSP00000029795
Gene: ENSMUSG00000028150

DomainStartEndE-ValueType
ZnF_C4 28 99 7.2e-37 SMART
low complexity region 116 133 N/A INTRINSIC
HOLI 320 474 3.78e-22 SMART
Predicted Effect probably damaging
Transcript: ENSMUST00000050975
AA Change: D115G

PolyPhen 2 Score 1.000 (Sensitivity: 0.00; Specificity: 1.00)
SMART Domains Protein: ENSMUSP00000058050
Gene: ENSMUSG00000044505
AA Change: D115G

DomainStartEndE-ValueType
LRRNT 55 89 1.23e-4 SMART
LRR 88 107 2.76e2 SMART
LRR_TYP 108 131 1.02e-6 SMART
LRR_TYP 132 155 7.26e-3 SMART
LRR 156 179 1.33e1 SMART
LRR_TYP 180 203 5.42e-2 SMART
LRR 204 227 4.45e1 SMART
LRR 228 251 3.27e1 SMART
LRR 300 323 4.83e0 SMART
LRR 324 347 3.07e-1 SMART
LRR 348 371 3.36e1 SMART
LRRCT 383 436 5.24e-5 SMART
IGc2 451 516 3.53e-13 SMART
transmembrane domain 560 582 N/A INTRINSIC
Predicted Effect probably benign
Transcript: ENSMUST00000197040
SMART Domains Protein: ENSMUSP00000143763
Gene: ENSMUSG00000028150

DomainStartEndE-ValueType
ZnF_C4 7 78 7.2e-37 SMART
low complexity region 95 112 N/A INTRINSIC
HOLI 299 453 3.78e-22 SMART
Predicted Effect noncoding transcript
Transcript: ENSMUST00000198793
Predicted Effect noncoding transcript
Transcript: ENSMUST00000198829
Predicted Effect probably benign
Transcript: ENSMUST00000200009
SMART Domains Protein: ENSMUSP00000143610
Gene: ENSMUSG00000028150

DomainStartEndE-ValueType
ZnF_C4 13 84 7.2e-37 SMART
low complexity region 101 118 N/A INTRINSIC
PDB:3L0L|B 243 309 1e-22 PDB
Meta Mutation Damage Score 0.2792 question?
Coding Region Coverage
  • 1x: 99.2%
  • 3x: 98.7%
  • 10x: 97.5%
  • 20x: 95.6%
Validation Efficiency
Allele List at MGI
Other mutations in this stock
Total: 58 list
GeneRefVarChr/LocMutationPredicted EffectZygosity
1700012B07Rik G T 11: 109,684,980 (GRCm39) C172* probably null Het
Akap9 A G 5: 4,004,410 (GRCm39) N108S probably benign Het
Ankmy1 A G 1: 92,811,480 (GRCm39) I636T possibly damaging Het
Bbs9 T A 9: 22,798,926 (GRCm39) D851E probably damaging Het
Bicd1 T A 6: 149,420,489 (GRCm39) L780M probably damaging Het
Ccdc175 T C 12: 72,227,598 (GRCm39) T62A possibly damaging Het
Cfhr4 T A 1: 139,680,773 (GRCm39) K248N probably damaging Het
Clcnka T C 4: 141,114,601 (GRCm39) E615G probably null Het
Col1a2 G A 6: 4,518,822 (GRCm39) probably benign Het
Cpxm2 C T 7: 131,681,820 (GRCm39) M236I probably benign Het
Dhrs2 A T 14: 55,472,205 (GRCm39) N32I probably benign Het
Fam131a G A 16: 20,514,608 (GRCm39) V70M probably benign Het
Fat3 G A 9: 15,909,567 (GRCm39) S2145F probably damaging Het
Fbxl15 G C 19: 46,317,891 (GRCm39) R191P possibly damaging Het
Fcrlb T C 1: 170,735,183 (GRCm39) T315A probably benign Het
Fer1l4 C T 2: 155,887,603 (GRCm39) G531D probably damaging Het
Gem C T 4: 11,705,965 (GRCm39) Q18* probably null Het
Hemk1 T A 9: 107,214,229 (GRCm39) I68F probably damaging Het
Herc3 C A 6: 58,893,835 (GRCm39) H970Q probably damaging Het
Ighv5-17 C A 12: 113,822,918 (GRCm39) A68S probably benign Het
Ip6k3 T C 17: 27,363,974 (GRCm39) H358R probably damaging Het
Itpr2 T C 6: 146,133,789 (GRCm39) probably null Het
Kmt2a C T 9: 44,731,653 (GRCm39) probably benign Het
Krt16 G T 11: 100,139,566 (GRCm39) R51S unknown Het
Lamtor1 G A 7: 101,560,552 (GRCm39) V156I probably damaging Het
Lrrc7 T C 3: 157,891,130 (GRCm39) I346V probably benign Het
Maco1 C T 4: 134,557,891 (GRCm39) M207I probably benign Het
Man1c1 A T 4: 134,430,662 (GRCm39) L40Q probably damaging Het
Mgat4c A G 10: 102,224,221 (GRCm39) N145S probably benign Het
Morf4l1 A G 9: 89,977,196 (GRCm39) S203P probably benign Het
Muc5ac T C 7: 141,367,471 (GRCm39) I2964T possibly damaging Het
Naip2 T A 13: 100,289,142 (GRCm39) Q1196L possibly damaging Het
Nbas G A 12: 13,532,505 (GRCm39) G1738S probably damaging Het
Nlrp5 A G 7: 23,104,271 (GRCm39) E44G probably benign Het
Nolc1 CCAGCAGCAGCAGCAGCAGCAGCAGC CCAGCAGCAGCAGCAGCAGCAGCAGCAGC 19: 46,069,791 (GRCm39) probably benign Het
Or4ac1-ps1 A T 2: 88,370,700 (GRCm39) noncoding transcript Het
Or5d18 A G 2: 87,864,911 (GRCm39) S191P possibly damaging Het
Otof T A 5: 30,543,843 (GRCm39) probably null Het
Pcdha2 G A 18: 37,072,582 (GRCm39) R71H probably benign Het
Pcdha2 G T 18: 37,074,744 (GRCm39) E792* probably null Het
Pcnx1 A G 12: 81,996,911 (GRCm39) T936A possibly damaging Het
Pofut2 T C 10: 77,096,640 (GRCm39) Y122H probably damaging Het
Psg16 A G 7: 16,824,609 (GRCm39) E131G probably benign Het
Psmd12 T G 11: 107,386,591 (GRCm39) D387E probably benign Het
Rab6a A G 7: 100,257,431 (GRCm39) M1V probably null Het
Ripk3 T C 14: 56,023,725 (GRCm39) R29G probably benign Het
Robo4 A T 9: 37,315,734 (GRCm39) D329V possibly damaging Het
Ruvbl2 A G 7: 45,071,614 (GRCm39) V423A possibly damaging Het
Rxylt1 A T 10: 121,917,514 (GRCm39) V333E possibly damaging Het
Scgb2b18 T G 7: 32,872,563 (GRCm39) M81L probably benign Het
Slc24a2 A T 4: 87,146,021 (GRCm39) L11H possibly damaging Het
Slc4a1 T C 11: 102,248,019 (GRCm39) E325G probably benign Het
Syt16 A G 12: 74,276,172 (GRCm39) E212G possibly damaging Het
Them6 A G 15: 74,593,367 (GRCm39) D75G probably damaging Het
Tnrc18 G A 5: 142,773,029 (GRCm39) A417V unknown Het
Vmn2r115 ATCTTCT ATCT 17: 23,578,962 (GRCm39) probably benign Het
Zbtb22 C T 17: 34,135,920 (GRCm39) probably benign Het
Zfp235 A G 7: 23,840,046 (GRCm39) D225G probably benign Het
Other mutations in Lingo4
AlleleSourceChrCoordTypePredicted EffectPPH Score
IGL01074:Lingo4 APN 3 94,310,595 (GRCm39) missense probably benign 0.00
IGL02662:Lingo4 APN 3 94,309,124 (GRCm39) unclassified probably benign
IGL02687:Lingo4 APN 3 94,309,404 (GRCm39) missense probably damaging 1.00
IGL02711:Lingo4 APN 3 94,310,700 (GRCm39) missense probably benign
IGL03001:Lingo4 APN 3 94,309,703 (GRCm39) missense probably damaging 1.00
IGL03260:Lingo4 APN 3 94,309,250 (GRCm39) missense probably benign
PIT4449001:Lingo4 UTSW 3 94,309,239 (GRCm39) missense probably benign
R0088:Lingo4 UTSW 3 94,309,340 (GRCm39) missense probably benign 0.39
R0616:Lingo4 UTSW 3 94,310,388 (GRCm39) missense probably benign 0.00
R1455:Lingo4 UTSW 3 94,306,699 (GRCm39) unclassified probably benign
R1733:Lingo4 UTSW 3 94,310,485 (GRCm39) missense probably benign 0.00
R2001:Lingo4 UTSW 3 94,310,382 (GRCm39) missense probably damaging 1.00
R2085:Lingo4 UTSW 3 94,309,552 (GRCm39) missense probably damaging 1.00
R3793:Lingo4 UTSW 3 94,309,685 (GRCm39) missense probably benign
R3805:Lingo4 UTSW 3 94,309,407 (GRCm39) missense probably damaging 1.00
R4438:Lingo4 UTSW 3 94,310,204 (GRCm39) missense possibly damaging 0.79
R4660:Lingo4 UTSW 3 94,310,672 (GRCm39) missense probably benign 0.00
R4724:Lingo4 UTSW 3 94,310,183 (GRCm39) nonsense probably null
R4981:Lingo4 UTSW 3 94,306,761 (GRCm39) missense probably benign 0.18
R4994:Lingo4 UTSW 3 94,310,308 (GRCm39) missense probably benign 0.02
R4994:Lingo4 UTSW 3 94,309,848 (GRCm39) missense probably benign
R5600:Lingo4 UTSW 3 94,309,220 (GRCm39) missense probably benign
R6188:Lingo4 UTSW 3 94,310,157 (GRCm39) missense probably damaging 1.00
R6267:Lingo4 UTSW 3 94,310,697 (GRCm39) missense probably benign 0.02
R6303:Lingo4 UTSW 3 94,310,513 (GRCm39) missense probably damaging 1.00
R6304:Lingo4 UTSW 3 94,310,513 (GRCm39) missense probably damaging 1.00
R6789:Lingo4 UTSW 3 94,306,662 (GRCm39) unclassified probably benign
R7313:Lingo4 UTSW 3 94,310,451 (GRCm39) missense possibly damaging 0.95
R7329:Lingo4 UTSW 3 94,310,162 (GRCm39) missense probably benign
R7631:Lingo4 UTSW 3 94,306,767 (GRCm39) missense possibly damaging 0.93
R7908:Lingo4 UTSW 3 94,309,541 (GRCm39) missense probably benign 0.19
R8277:Lingo4 UTSW 3 94,309,931 (GRCm39) missense possibly damaging 0.61
R8848:Lingo4 UTSW 3 94,310,840 (GRCm39) missense probably benign
R9257:Lingo4 UTSW 3 94,310,676 (GRCm39) missense probably benign 0.05
R9753:Lingo4 UTSW 3 94,309,493 (GRCm39) nonsense probably null
X0054:Lingo4 UTSW 3 94,310,683 (GRCm39) missense possibly damaging 0.54
Z1177:Lingo4 UTSW 3 94,310,301 (GRCm39) missense probably damaging 1.00
Predicted Primers PCR Primer
(F):5'- ATCTATTCCAGGCCTCAGGG -3'
(R):5'- AGGACAATCTGATTGAGGCG -3'

Sequencing Primer
(F):5'- ATCAGTAGCTGCCCCACTGTG -3'
(R):5'- CAATCTGATTGAGGCGGAGGTC -3'
Posted On 2015-04-02