Incidental Mutation 'R2020:Nlgn2'
ID 223865
Institutional Source Beutler Lab
Gene Symbol Nlgn2
Ensembl Gene ENSMUSG00000051790
Gene Name neuroligin 2
Synonyms NL2
MMRRC Submission 040029-MU
Accession Numbers
Is this an essential gene? Non essential (E-score: 0.000) question?
Stock # R2020 (G1)
Quality Score 220
Status Validated
Chromosome 11
Chromosomal Location 69823122-69837784 bp(-) (GRCm38)
Type of Mutation missense
DNA Base Change (assembly) G to T at 69828441 bp (GRCm38)
Zygosity Heterozygous
Amino Acid Change Asparagine to Lysine at position 194 (N194K)
Ref Sequence ENSEMBL: ENSMUSP00000104274 (fasta)
Gene Model predicted gene model for transcript(s): [ENSMUST00000056484] [ENSMUST00000108634]
AlphaFold Q69ZK9
Predicted Effect probably damaging
Transcript: ENSMUST00000056484
AA Change: N194K

PolyPhen 2 Score 1.000 (Sensitivity: 0.00; Specificity: 1.00)
SMART Domains Protein: ENSMUSP00000053097
Gene: ENSMUSG00000051790
AA Change: N194K

DomainStartEndE-ValueType
Pfam:COesterase 31 601 1.6e-199 PFAM
Pfam:Abhydrolase_3 180 372 4.8e-9 PFAM
low complexity region 630 652 N/A INTRINSIC
transmembrane domain 678 700 N/A INTRINSIC
low complexity region 702 712 N/A INTRINSIC
low complexity region 713 731 N/A INTRINSIC
low complexity region 782 823 N/A INTRINSIC
Predicted Effect probably damaging
Transcript: ENSMUST00000108634
AA Change: N194K

PolyPhen 2 Score 1.000 (Sensitivity: 0.00; Specificity: 1.00)
SMART Domains Protein: ENSMUSP00000104274
Gene: ENSMUSG00000051790
AA Change: N194K

DomainStartEndE-ValueType
Pfam:COesterase 30 601 2e-186 PFAM
Pfam:Abhydrolase_3 180 327 3.3e-9 PFAM
low complexity region 630 652 N/A INTRINSIC
transmembrane domain 678 700 N/A INTRINSIC
low complexity region 702 712 N/A INTRINSIC
low complexity region 713 731 N/A INTRINSIC
low complexity region 782 823 N/A INTRINSIC
Predicted Effect unknown
Transcript: ENSMUST00000139893
AA Change: N117K
SMART Domains Protein: ENSMUSP00000120428
Gene: ENSMUSG00000051790
AA Change: N117K

DomainStartEndE-ValueType
Pfam:COesterase 1 262 9.3e-120 PFAM
Pfam:Abhydrolase_3 104 250 2e-9 PFAM
Predicted Effect noncoding transcript
Transcript: ENSMUST00000140477
Meta Mutation Damage Score 0.5651 question?
Coding Region Coverage
  • 1x: 99.2%
  • 3x: 98.5%
  • 10x: 96.8%
  • 20x: 93.6%
Validation Efficiency 99% (87/88)
MGI Phenotype FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] This gene encodes a member of a family of neuronal cell surface proteins. Members of this family may act as splice site-specific ligands for beta-neurexins and may be involved in the formation and remodeling of central nervous system synapses. [provided by RefSeq, Jul 2008]
PHENOTYPE: Mice homozygous for a conditional ready allele are viable and fertile. [provided by MGI curators]
Allele List at MGI
Other mutations in this stock
Total: 86 list
GeneRefVarChr/LocMutationPredicted EffectZygosity
1600012P17Rik C A 1: 158,968,912 noncoding transcript Het
9530053A07Rik T C 7: 28,155,594 S1882P probably benign Het
Adam17 G A 12: 21,349,875 R177C probably damaging Het
Ak7 G A 12: 105,745,332 probably null Het
Akap9 T C 5: 3,961,967 V890A probably damaging Het
Alg6 A G 4: 99,738,132 N59S probably damaging Het
Alkbh5 G T 11: 60,538,549 A43S probably benign Het
Anxa2 C A 9: 69,483,817 D162E probably damaging Het
Arap1 A G 7: 101,401,518 H1136R probably benign Het
Arhgap18 A G 10: 26,854,904 R121G probably benign Het
Arhgef4 A T 1: 34,723,810 T716S unknown Het
Atg2a T C 19: 6,250,269 probably null Het
Ccdc27 T C 4: 154,033,313 I480V probably null Het
Cdipt T C 7: 126,976,933 V20A possibly damaging Het
Cgrrf1 C T 14: 46,830,445 probably benign Het
Chd7 G A 4: 8,855,226 V2152I probably benign Het
Chd8 T A 14: 52,215,241 S1274C probably damaging Het
Chuk A T 19: 44,107,343 M17K possibly damaging Het
Col14a1 C T 15: 55,446,181 probably benign Het
Col20a1 G A 2: 181,013,163 probably null Het
Cped1 A G 6: 22,143,964 I570V probably benign Het
Cul9 C G 17: 46,522,175 A1326P probably damaging Het
Ddx27 A C 2: 167,033,771 Q674P probably damaging Het
Dennd6a T A 14: 26,612,003 F131L probably damaging Het
Dhx38 G A 8: 109,556,869 probably benign Het
Dido1 G T 2: 180,659,585 N2175K unknown Het
Dmxl1 T A 18: 49,889,558 Y1654* probably null Het
Dock7 T A 4: 98,959,101 H1658L probably damaging Het
Dync2h1 T A 9: 7,122,772 E2061D probably damaging Het
Dync2h1 T C 9: 7,162,925 I555V probably benign Het
Eif2ak2 T C 17: 78,863,963 E337G possibly damaging Het
Fabp12 T A 3: 10,250,149 D46V probably benign Het
Fech C T 18: 64,478,727 E79K probably damaging Het
Flnc A T 6: 29,444,363 I693F probably damaging Het
Foxp2 G A 6: 15,324,644 C97Y possibly damaging Het
Grin2b A G 6: 135,733,896 M884T probably benign Het
Gtf2ird1 T C 5: 134,417,093 D28G probably damaging Het
Gtf3c4 C A 2: 28,833,894 G468W possibly damaging Het
Ift172 A T 5: 31,267,241 L201* probably null Het
Il1rl2 C A 1: 40,365,214 S498R probably damaging Het
Ildr1 C T 16: 36,725,541 R489W probably damaging Het
Itga10 G A 3: 96,652,490 G487D probably damaging Het
Klk8 A G 7: 43,799,216 N128D probably benign Het
Lgr6 G A 1: 135,075,275 T79M probably damaging Het
Med6 T C 12: 81,573,877 T232A probably benign Het
Mgat4e A G 1: 134,541,322 L328P probably damaging Het
Mttp A G 3: 138,118,402 Y138H probably damaging Het
Ngef T C 1: 87,545,968 R31G probably benign Het
Nipsnap2 C A 5: 129,753,223 probably null Het
Olfr1026 A G 2: 85,923,743 I158M probably benign Het
Olfr1245 A T 2: 89,574,961 M255K possibly damaging Het
Olfr1450 G A 19: 12,954,332 V248I possibly damaging Het
Olfr357 G A 2: 36,997,652 V281M possibly damaging Het
Olfr894 A G 9: 38,219,432 Y203C possibly damaging Het
Pcca T A 14: 122,813,222 M101K possibly damaging Het
Plekha6 A G 1: 133,284,970 T671A possibly damaging Het
Prex2 G A 1: 11,162,312 V868M probably damaging Het
Prkcq G A 2: 11,279,521 V501I probably benign Het
Prom1 T A 5: 44,011,253 probably benign Het
Ptprd A G 4: 76,133,161 V41A probably damaging Het
Rab39 C T 9: 53,686,398 G189E possibly damaging Het
Ret T C 6: 118,180,382 K236E possibly damaging Het
Rfx6 G A 10: 51,720,057 probably null Het
Rnf213 A G 11: 119,461,918 T3916A probably damaging Het
Rpn1 A G 6: 88,095,683 N336S probably damaging Het
Sag G A 1: 87,805,315 A2T probably damaging Het
Sco2 T C 15: 89,371,860 Y197C probably damaging Het
Sec23b T C 2: 144,566,944 I183T possibly damaging Het
Sec24b C T 3: 129,987,728 V1166M probably damaging Het
Slc27a5 A T 7: 12,993,412 F361Y probably damaging Het
Spaca9 A G 2: 28,696,001 L17P probably damaging Het
Sqor T C 2: 122,804,107 probably null Het
Stx18 A G 5: 38,135,244 H230R probably damaging Het
Tas2r130 A T 6: 131,630,769 I21N probably damaging Het
Tcaf3 A G 6: 42,593,724 S365P possibly damaging Het
Tinagl1 G A 4: 130,166,972 H351Y probably damaging Het
Tmc2 T C 2: 130,232,385 Y333H probably damaging Het
Trp53bp2 A T 1: 182,442,819 T395S probably damaging Het
Tsc22d1 T C 14: 76,418,333 S751P probably damaging Het
Ttc30a1 A G 2: 75,980,935 V268A probably benign Het
Ttn A G 2: 76,827,024 probably benign Het
Ugdh T C 5: 65,416,925 Y425C probably damaging Het
Vmn1r115 G A 7: 20,844,169 L273F probably null Het
Vmn2r109 A T 17: 20,541,186 C636* probably null Het
Vmn2r59 A C 7: 42,043,779 Y466D probably damaging Het
Zic5 C T 14: 122,464,830 G163D unknown Het
Other mutations in Nlgn2
AlleleSourceChrCoordTypePredicted EffectPPH Score
IGL01845:Nlgn2 APN 11 69825849 missense possibly damaging 0.78
IGL02649:Nlgn2 APN 11 69825802 missense probably benign 0.04
IGL02887:Nlgn2 APN 11 69827254 missense probably benign 0.24
IGL02904:Nlgn2 APN 11 69825840 missense possibly damaging 0.91
P0040:Nlgn2 UTSW 11 69825730 missense probably benign 0.01
R0800:Nlgn2 UTSW 11 69825997 missense possibly damaging 0.92
R1901:Nlgn2 UTSW 11 69825900 missense probably damaging 1.00
R1960:Nlgn2 UTSW 11 69827310 missense probably damaging 1.00
R1997:Nlgn2 UTSW 11 69828050 missense probably damaging 1.00
R2426:Nlgn2 UTSW 11 69827086 missense probably damaging 1.00
R3768:Nlgn2 UTSW 11 69828404 missense possibly damaging 0.95
R4584:Nlgn2 UTSW 11 69834278 missense possibly damaging 0.48
R4609:Nlgn2 UTSW 11 69834086 missense probably damaging 0.99
R5028:Nlgn2 UTSW 11 69827737 missense probably benign 0.11
R5141:Nlgn2 UTSW 11 69825390 missense probably damaging 1.00
R5149:Nlgn2 UTSW 11 69825390 missense probably damaging 1.00
R5150:Nlgn2 UTSW 11 69825390 missense probably damaging 1.00
R5458:Nlgn2 UTSW 11 69827900 missense possibly damaging 0.87
R5930:Nlgn2 UTSW 11 69834149 missense probably damaging 1.00
R6823:Nlgn2 UTSW 11 69825924 missense probably damaging 1.00
R7096:Nlgn2 UTSW 11 69825690 missense probably damaging 1.00
R7310:Nlgn2 UTSW 11 69830583 missense possibly damaging 0.64
R7318:Nlgn2 UTSW 11 69825969 missense probably damaging 1.00
R7643:Nlgn2 UTSW 11 69827885 missense probably damaging 1.00
R7912:Nlgn2 UTSW 11 69825934 missense probably damaging 1.00
R8679:Nlgn2 UTSW 11 69825483 missense probably benign 0.00
R8870:Nlgn2 UTSW 11 69825471 missense possibly damaging 0.78
R8932:Nlgn2 UTSW 11 69828168 missense probably damaging 1.00
R9232:Nlgn2 UTSW 11 69828029 missense probably damaging 1.00
Z1186:Nlgn2 UTSW 11 69828394 missense possibly damaging 0.57
Z1187:Nlgn2 UTSW 11 69828394 missense possibly damaging 0.57
Z1188:Nlgn2 UTSW 11 69828394 missense possibly damaging 0.57
Z1189:Nlgn2 UTSW 11 69828394 missense possibly damaging 0.57
Z1190:Nlgn2 UTSW 11 69828394 missense possibly damaging 0.57
Z1191:Nlgn2 UTSW 11 69828394 missense possibly damaging 0.57
Z1192:Nlgn2 UTSW 11 69828394 missense possibly damaging 0.57
Predicted Primers PCR Primer
(F):5'- AGGTGTCACAGCATCCTTG -3'
(R):5'- GTTAGTGACAAGTCCCCTGAGC -3'

Sequencing Primer
(F):5'- CAGGGGCTTAATGCAGCG -3'
(R):5'- AAGTCCCCTGAGCTCCAG -3'
Posted On 2014-08-25