Incidental Mutation 'R4742:Slitrk3'
ID 358121
Institutional Source Beutler Lab
Gene Symbol Slitrk3
Ensembl Gene ENSMUSG00000048304
Gene Name SLIT and NTRK-like family, member 3
Synonyms ST3
MMRRC Submission 041966-MU
Accession Numbers
Essential gene? Possibly essential (E-score: 0.715) question?
Stock # R4742 (G1)
Quality Score 225
Status Validated
Chromosome 3
Chromosomal Location 72954598-72965136 bp(-) (GRCm39)
Type of Mutation missense
DNA Base Change (assembly) T to C at 72955898 bp (GRCm39)
Zygosity Heterozygous
Amino Acid Change Aspartic acid to Glycine at position 958 (D958G)
Ref Sequence ENSEMBL: ENSMUSP00000141236 (fasta)
Gene Model predicted gene model for transcript(s): [ENSMUST00000059407] [ENSMUST00000192477]
AlphaFold Q810B9
Predicted Effect probably benign
Transcript: ENSMUST00000059407
AA Change: D958G

PolyPhen 2 Score 0.001 (Sensitivity: 0.99; Specificity: 0.15)
SMART Domains Protein: ENSMUSP00000088561
Gene: ENSMUSG00000048304
AA Change: D958G

DomainStartEndE-ValueType
signal peptide 1 29 N/A INTRINSIC
Blast:LRRNT 44 79 3e-11 BLAST
LRR 101 124 2.08e1 SMART
LRR 125 148 6.05e0 SMART
LRR 149 172 3.97e0 SMART
LRR_TYP 173 196 1.67e-2 SMART
LRR 197 220 2.69e2 SMART
LRRCT 233 283 4.56e-5 SMART
low complexity region 332 350 N/A INTRINSIC
LRRNT 373 411 4.17e0 SMART
LRR 432 455 1.62e0 SMART
LRR_TYP 456 479 2.61e-4 SMART
LRR 480 503 2.82e0 SMART
LRR_TYP 504 527 6.99e-5 SMART
LRRCT 563 613 3.22e-5 SMART
transmembrane domain 658 680 N/A INTRINSIC
low complexity region 713 724 N/A INTRINSIC
low complexity region 836 843 N/A INTRINSIC
low complexity region 846 858 N/A INTRINSIC
low complexity region 870 888 N/A INTRINSIC
Blast:LRRCT 906 943 2e-16 BLAST
Predicted Effect noncoding transcript
Transcript: ENSMUST00000192141
Predicted Effect probably benign
Transcript: ENSMUST00000192477
AA Change: D958G

PolyPhen 2 Score 0.001 (Sensitivity: 0.99; Specificity: 0.15)
SMART Domains Protein: ENSMUSP00000141236
Gene: ENSMUSG00000048304
AA Change: D958G

DomainStartEndE-ValueType
signal peptide 1 29 N/A INTRINSIC
Blast:LRRNT 44 79 3e-11 BLAST
LRR 101 124 2.08e1 SMART
LRR 125 148 6.05e0 SMART
LRR 149 172 3.97e0 SMART
LRR_TYP 173 196 1.67e-2 SMART
LRR 197 220 2.69e2 SMART
LRRCT 233 283 4.56e-5 SMART
low complexity region 332 350 N/A INTRINSIC
LRRNT 373 411 4.17e0 SMART
LRR 432 455 1.62e0 SMART
LRR_TYP 456 479 2.61e-4 SMART
LRR 480 503 2.82e0 SMART
LRR_TYP 504 527 6.99e-5 SMART
LRRCT 563 613 3.22e-5 SMART
transmembrane domain 658 680 N/A INTRINSIC
low complexity region 713 724 N/A INTRINSIC
low complexity region 836 843 N/A INTRINSIC
low complexity region 846 858 N/A INTRINSIC
low complexity region 870 888 N/A INTRINSIC
Blast:LRRCT 906 943 2e-16 BLAST
Meta Mutation Damage Score 0.0898 question?
Coding Region Coverage
  • 1x: 99.1%
  • 3x: 98.5%
  • 10x: 96.8%
  • 20x: 93.9%
Validation Efficiency 94% (51/54)
MGI Phenotype FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] This gene encodes a member of the Slitrk family of structurally related transmembrane proteins that are involved in controlling neurite outgrowth. The encoded protein contains two leucine-rich repeat (LRR) domains and a C-terminal domain that is partially similar to Trk neurotrophin receptor protein. Enhanced expression of this gene was found in tissue from several different types of tumors. Alternative splicing results in multiple transcript variants, all encoding the same protein. [provided by RefSeq, Jan 2016]
PHENOTYPE: Mice homozygous for a knock-out mice exhibit reduced inhibitory synapse density, decreased miniature inhibitory postsynaptic current frequency and increased susceptibility to spontaneous and pharmacologically-induced seizures. [provided by MGI curators]
Allele List at MGI
Other mutations in this stock
Total: 47 list
GeneRefVarChr/LocMutationPredicted EffectZygosity
8030423J24Rik G T 13: 71,031,644 (GRCm39) R17L unknown Het
Acan T C 7: 78,750,517 (GRCm39) F1763L probably benign Het
Adgrb1 T A 15: 74,401,328 (GRCm39) L108* probably null Het
Anapc2 T A 2: 25,163,555 (GRCm39) probably null Het
Apbb1ip A G 2: 22,716,928 (GRCm39) K177E unknown Het
Azgp1 T A 5: 137,987,888 (GRCm39) Y223* probably null Het
Cfap44 T G 16: 44,269,615 (GRCm39) probably null Het
Chfr C T 5: 110,291,464 (GRCm39) T94I probably benign Het
Chrna10 T G 7: 101,762,344 (GRCm39) Q282P probably damaging Het
Col9a3 G T 2: 180,245,180 (GRCm39) G130W unknown Het
Dcaf1 A G 9: 106,735,754 (GRCm39) T901A probably benign Het
Dock2 T G 11: 34,244,170 (GRCm39) probably null Het
Dysf C A 6: 84,074,697 (GRCm39) D499E probably damaging Het
Fdxacb1 A G 9: 50,679,968 (GRCm39) probably benign Het
Fhip1b A G 7: 105,033,518 (GRCm39) V566A probably damaging Het
Il31ra G T 13: 112,660,501 (GRCm39) S615* probably null Het
Itgam C T 7: 127,712,245 (GRCm39) S827F probably damaging Het
Mapkbp1 T A 2: 119,847,299 (GRCm39) V512E probably damaging Het
Myo1c C T 11: 75,560,856 (GRCm39) R770* probably null Het
Nab2 T C 10: 127,498,696 (GRCm39) T458A probably benign Het
Nadsyn1 A G 7: 143,352,367 (GRCm39) probably benign Het
Nek10 A G 14: 14,861,624 (GRCm38) D560G probably null Het
Or2ag13 A T 7: 106,472,635 (GRCm39) N272K probably damaging Het
Or2ak6 A G 11: 58,592,685 (GRCm39) R53G probably benign Het
Or8b46 T C 9: 38,450,952 (GRCm39) S254P probably damaging Het
Pou1f1 C A 16: 65,320,367 (GRCm39) P19T probably benign Het
Prdm9 A T 17: 15,773,783 (GRCm39) D329E probably damaging Het
Prkn T A 17: 11,456,591 (GRCm39) probably null Het
Ptprm A C 17: 67,051,746 (GRCm39) Y962* probably null Het
Rad9a G A 19: 4,250,560 (GRCm39) R85C probably damaging Het
Rhox2c A C X: 36,635,351 (GRCm39) Q4H probably benign Het
Rlig1 T C 10: 100,414,243 (GRCm39) I139V probably benign Het
Rtkn2 A G 10: 67,839,144 (GRCm39) T154A possibly damaging Het
Spata31d1b C A 13: 59,864,426 (GRCm39) H525N probably damaging Het
Tacc2 A G 7: 130,227,697 (GRCm39) R1461G probably benign Het
Tas2r105 G A 6: 131,663,814 (GRCm39) H205Y probably damaging Het
Tenm4 A G 7: 96,446,691 (GRCm39) N809D probably damaging Het
Thoc2l A T 5: 104,666,723 (GRCm39) N415I probably benign Het
Tns1 A G 1: 74,163,449 (GRCm39) probably null Het
Top1 A G 2: 160,545,490 (GRCm39) probably null Het
Traf3ip2 C T 10: 39,515,256 (GRCm39) P345S possibly damaging Het
Ttn T A 2: 76,585,168 (GRCm39) I22042F probably damaging Het
Txndc9 T C 1: 38,026,765 (GRCm39) D135G possibly damaging Het
Usp3 A G 9: 66,427,959 (GRCm39) Y339H probably damaging Het
Vmn1r5 A T 6: 56,963,236 (GRCm39) K304* probably null Het
Vmn2r92 A G 17: 18,387,119 (GRCm39) T153A probably benign Het
Xkr5 A T 8: 18,998,746 (GRCm39) *55K probably null Het
Other mutations in Slitrk3
AlleleSourceChrCoordTypePredicted EffectPPH Score
IGL00465:Slitrk3 APN 3 72,958,436 (GRCm39) missense probably damaging 1.00
IGL00857:Slitrk3 APN 3 72,957,174 (GRCm39) missense probably damaging 1.00
IGL00990:Slitrk3 APN 3 72,957,414 (GRCm39) missense probably damaging 1.00
IGL01010:Slitrk3 APN 3 72,956,606 (GRCm39) missense probably benign 0.14
IGL01299:Slitrk3 APN 3 72,956,349 (GRCm39) missense probably benign 0.43
IGL01609:Slitrk3 APN 3 72,957,570 (GRCm39) missense probably damaging 1.00
IGL01881:Slitrk3 APN 3 72,956,639 (GRCm39) missense probably benign 0.00
IGL01941:Slitrk3 APN 3 72,958,404 (GRCm39) missense possibly damaging 0.72
IGL02183:Slitrk3 APN 3 72,957,312 (GRCm39) missense probably damaging 0.97
IGL02187:Slitrk3 APN 3 72,957,605 (GRCm39) missense probably damaging 1.00
IGL02478:Slitrk3 APN 3 72,958,046 (GRCm39) missense probably damaging 0.96
IGL02512:Slitrk3 APN 3 72,957,735 (GRCm39) missense probably benign 0.28
IGL02720:Slitrk3 APN 3 72,958,101 (GRCm39) missense probably damaging 1.00
IGL03113:Slitrk3 APN 3 72,957,723 (GRCm39) missense probably benign 0.00
IGL03224:Slitrk3 APN 3 72,957,263 (GRCm39) missense possibly damaging 0.72
wee UTSW 3 72,958,118 (GRCm39) missense probably damaging 1.00
R0233:Slitrk3 UTSW 3 72,955,910 (GRCm39) missense probably benign 0.00
R0233:Slitrk3 UTSW 3 72,955,910 (GRCm39) missense probably benign 0.00
R0639:Slitrk3 UTSW 3 72,956,982 (GRCm39) missense probably benign 0.02
R1448:Slitrk3 UTSW 3 72,957,674 (GRCm39) missense probably damaging 0.99
R1656:Slitrk3 UTSW 3 72,957,672 (GRCm39) missense probably damaging 0.98
R1713:Slitrk3 UTSW 3 72,957,024 (GRCm39) missense probably benign 0.00
R1992:Slitrk3 UTSW 3 72,957,104 (GRCm39) missense possibly damaging 0.80
R1999:Slitrk3 UTSW 3 72,957,297 (GRCm39) missense probably benign 0.13
R2359:Slitrk3 UTSW 3 72,956,678 (GRCm39) missense possibly damaging 0.56
R3083:Slitrk3 UTSW 3 72,955,928 (GRCm39) missense probably benign 0.00
R3153:Slitrk3 UTSW 3 72,956,315 (GRCm39) nonsense probably null
R3821:Slitrk3 UTSW 3 72,956,549 (GRCm39) missense possibly damaging 0.94
R4208:Slitrk3 UTSW 3 72,958,490 (GRCm39) missense possibly damaging 0.67
R4323:Slitrk3 UTSW 3 72,958,118 (GRCm39) missense probably damaging 1.00
R4580:Slitrk3 UTSW 3 72,958,539 (GRCm39) missense probably damaging 0.96
R4730:Slitrk3 UTSW 3 72,956,852 (GRCm39) missense probably benign 0.08
R4979:Slitrk3 UTSW 3 72,957,129 (GRCm39) missense possibly damaging 0.95
R5018:Slitrk3 UTSW 3 72,957,845 (GRCm39) missense probably benign 0.31
R5023:Slitrk3 UTSW 3 72,957,981 (GRCm39) missense probably benign 0.24
R5057:Slitrk3 UTSW 3 72,957,981 (GRCm39) missense probably benign 0.24
R5156:Slitrk3 UTSW 3 72,956,592 (GRCm39) missense probably benign
R5500:Slitrk3 UTSW 3 72,957,680 (GRCm39) missense probably damaging 1.00
R5582:Slitrk3 UTSW 3 72,957,737 (GRCm39) missense probably benign 0.09
R5797:Slitrk3 UTSW 3 72,955,962 (GRCm39) missense probably damaging 0.99
R5963:Slitrk3 UTSW 3 72,958,046 (GRCm39) missense probably benign 0.30
R5985:Slitrk3 UTSW 3 72,958,233 (GRCm39) missense probably damaging 1.00
R6123:Slitrk3 UTSW 3 72,957,095 (GRCm39) missense probably damaging 1.00
R6393:Slitrk3 UTSW 3 72,957,247 (GRCm39) missense possibly damaging 0.79
R6529:Slitrk3 UTSW 3 72,958,551 (GRCm39) missense probably benign 0.02
R6584:Slitrk3 UTSW 3 72,956,558 (GRCm39) missense probably damaging 0.99
R6645:Slitrk3 UTSW 3 72,957,194 (GRCm39) missense probably benign 0.13
R7001:Slitrk3 UTSW 3 72,957,942 (GRCm39) nonsense probably null
R7282:Slitrk3 UTSW 3 72,957,798 (GRCm39) missense possibly damaging 0.70
R7534:Slitrk3 UTSW 3 72,957,440 (GRCm39) missense probably damaging 0.98
R7577:Slitrk3 UTSW 3 72,958,448 (GRCm39) missense probably damaging 0.99
R7757:Slitrk3 UTSW 3 72,958,172 (GRCm39) missense probably damaging 1.00
R8251:Slitrk3 UTSW 3 72,956,729 (GRCm39) missense possibly damaging 0.67
R8354:Slitrk3 UTSW 3 72,956,513 (GRCm39) missense probably benign 0.08
R8454:Slitrk3 UTSW 3 72,956,513 (GRCm39) missense probably benign 0.08
R8488:Slitrk3 UTSW 3 72,958,520 (GRCm39) missense probably benign 0.02
R8491:Slitrk3 UTSW 3 72,958,592 (GRCm39) missense possibly damaging 0.89
R8843:Slitrk3 UTSW 3 72,956,164 (GRCm39) missense probably benign 0.04
R9140:Slitrk3 UTSW 3 72,957,792 (GRCm39) missense probably benign 0.02
R9451:Slitrk3 UTSW 3 72,958,616 (GRCm39) missense possibly damaging 0.83
R9511:Slitrk3 UTSW 3 72,958,272 (GRCm39) missense possibly damaging 0.46
R9575:Slitrk3 UTSW 3 72,956,127 (GRCm39) missense probably benign 0.00
R9589:Slitrk3 UTSW 3 72,957,981 (GRCm39) missense probably benign 0.24
R9603:Slitrk3 UTSW 3 72,958,649 (GRCm39) missense probably benign 0.00
X0022:Slitrk3 UTSW 3 72,957,599 (GRCm39) missense probably damaging 1.00
Z1176:Slitrk3 UTSW 3 72,956,103 (GRCm39) missense probably benign 0.09
Z1177:Slitrk3 UTSW 3 72,956,475 (GRCm39) missense probably benign 0.00
Predicted Primers PCR Primer
(F):5'- CATGCGTTTCAGTTCTGTCCTAGG -3'
(R):5'- TCCGTGCACAGTGGGATTTG -3'

Sequencing Primer
(F):5'- TTCTGTCCTAGGCAGGGGAAAC -3'
(R):5'- GTGGACTGTCTCTATGGCAC -3'
Posted On 2015-11-11