Nlgn3 (neuroligin 3) - Rat Genome Database

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Advanced Search (OLGA)
Gene: Nlgn3 (neuroligin 3) Rattus norvegicus
Analyze
Symbol: Nlgn3
Name: neuroligin 3
RGD ID: 621119
Description: Enables cell adhesion molecule binding activity; neurexin family protein binding activity; and signaling receptor activity. Involved in several processes, including inhibitory postsynaptic potential; neuron cell-cell adhesion; and synapse assembly. Acts upstream of or within synapse organization. Located in several cellular components, including excitatory synapse; inhibitory synapse; and postsynaptic membrane. Is active in GABA-ergic synapse; glutamatergic synapse; and postsynaptic specialization membrane. Used to study autism spectrum disorder. Biomarker of sciatic neuropathy. Human ortholog(s) of this gene implicated in autistic disorder. Orthologous to human NLGN3 (neuroligin 3); INTERACTS WITH 17alpha-ethynylestradiol; 2,2',4,4'-Tetrabromodiphenyl ether; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: gliotactin homolog; neuroligin-3
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Allele / Splice: Nlgn3em1Sage  
Genetic Models: SD-Nlgn3em1Sage
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X70,469,251 - 70,497,380 (+)NCBIGRCr8
mRatBN7.2X66,427,926 - 66,457,378 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX66,429,458 - 66,451,876 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX67,912,829 - 67,935,228 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X71,413,217 - 71,435,616 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X68,974,124 - 68,996,518 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X71,199,390 - 71,227,460 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX71,199,491 - 71,222,732 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X72,051,846 - 72,075,119 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X89,376,193 - 89,398,665 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1X89,449,625 - 89,471,949 (+)NCBI
CeleraX66,785,377 - 66,807,774 (+)NCBICelera
Cytogenetic MapXq22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
adult behavior  (IEA,ISO)
axon extension  (IMP)
cell adhesion  (IEA)
chemical synaptic transmission  (IBA)
circadian sleep/wake cycle  (IMP)
excitatory postsynaptic potential  (ISO,ISS)
inhibitory postsynaptic potential  (IDA,ISO)
learning  (IEA,ISO)
long-term synaptic potentiation  (ISO)
membrane assembly  (IEA)
modulation of chemical synaptic transmission  (IBA,ISO,ISS)
negative regulation of dendritic spine morphogenesis  (ISO)
negative regulation of excitatory postsynaptic potential  (ISO)
neuron cell-cell adhesion  (IBA,IDA)
oligodendrocyte differentiation  (ISO)
positive regulation of AMPA receptor activity  (ISO)
positive regulation of dendritic spine development  (IMP)
positive regulation of excitatory postsynaptic potential  (ISO,ISS)
positive regulation of glutamate receptor signaling pathway  (ISO,ISS)
positive regulation of inhibitory postsynaptic potential  (IDA)
positive regulation of multicellular organismal process  (IEA)
positive regulation of protein localization to synapse  (IMP)
positive regulation of synapse assembly  (IDA,ISO)
positive regulation of synaptic transmission, glutamatergic  (ISO,ISS)
positive regulation of synaptic vesicle clustering  (ISO)
postsynaptic membrane assembly  (IBA,ISO,ISS)
postsynaptic specialization assembly  (IDA)
prepulse inhibition  (IMP)
presynaptic membrane assembly  (IBA,IDA)
receptor-mediated endocytosis  (IDA)
regulation of AMPA receptor activity  (ISO,ISS)
regulation of dendritic spine morphogenesis  (ISO,ISS)
regulation of long-term synaptic potentiation  (ISO,ISS)
regulation of membrane potential  (IEA)
regulation of nervous system process  (IEA)
regulation of NMDA receptor activity  (ISO,ISS)
regulation of respiratory gaseous exchange by nervous system process  (ISO,ISS)
regulation of signal transduction  (IEA)
regulation of synaptic transmission, glutamatergic  (ISO,ISS)
regulation of terminal button organization  (ISO,ISS)
rhythmic synaptic transmission  (IMP)
social behavior  (IEA,ISO,ISS)
synapse assembly  (IDA,IEA)
synapse organization  (IDA,ISO)
synaptic vesicle endocytosis  (IBA)
visual learning  (ISO)
vocalization behavior  (IEA,ISO)

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Neuroligin-3 is a neuronal adhesion protein at GABAergic and glutamatergic synapses. Budreck EC and Scheiffele P, Eur J Neurosci. 2007 Oct;26(7):1738-48.
2. Control of excitatory and inhibitory synapse formation by neuroligins. Chih B, etal., Science. 2005 Feb 25;307(5713):1324-8. Epub 2005 Jan 27.
3. Dissection of synapse induction by neuroligins: effect of a neuroligin mutation associated with autism. Chubykin AA, etal., J Biol Chem. 2005 Jun 10;280(23):22365-74. Epub 2005 Mar 29.
4. The Arg451Cys-neuroligin-3 mutation associated with autism reveals a defect in protein processing. Comoletti D, etal., J Neurosci. 2004 May 19;24(20):4889-93.
5. Autism-linked neuroligin-3 R451C mutation differentially alters hippocampal and cortical synaptic function. Etherton M, etal., Proc Natl Acad Sci U S A. 2011 Aug 16;108(33):13764-9. doi: 10.1073/pnas.1111093108. Epub 2011 Aug 1.
6. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
7. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
8. Altered synchrony and connectivity in neuronal networks expressing an autism-related mutation of neuroligin 3. Gutierrez RC, etal., Neuroscience. 2009 Aug 4;162(1):208-21. doi: 10.1016/j.neuroscience.2009.04.062. Epub 2009 May 3.
9. Fmr1 and Nlgn3 knockout rats: novel tools for investigating autism spectrum disorders. Hamilton SM, etal., Behav Neurosci. 2014 Apr;128(2):103-9. doi: 10.1037/a0035988.
10. Structures, alternative splicing, and neurexin binding of multiple neuroligins. Ichtchenko K, etal., J Biol Chem 1996 Feb 2;271(5):2676-82.
11. Postsynaptic scaffolding molecules modulate the localization of neuroligins. Levinson JN, etal., Neuroscience. 2010 Feb 3;165(3):782-93. doi: 10.1016/j.neuroscience.2009.11.016. Epub 2009 Nov 13.
12. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
13. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
14. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
15. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
16. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
17. Transcellular neuroligin-2 interactions enhance insulin secretion and are integral to pancreatic beta cell function. Suckow AT, etal., J Biol Chem. 2012 Jun 8;287(24):19816-26. doi: 10.1074/jbc.M111.280537. Epub 2012 Apr 23.
18. Sleep/Wake Physiology and Quantitative Electroencephalogram Analysis of the Neuroligin-3 Knockout Rat Model of Autism Spectrum Disorder. Thomas AM, etal., Sleep. 2017 Oct 1;40(10). pii: 4100612. doi: 10.1093/sleep/zsx138.
19. Down-regulation of mRNAs for synaptic adhesion molecules neuroligin-2 and -3 and synCAM1 in spinal motoneurons after axotomy. Zelano J, etal., J Comp Neurol. 2007 Jul 10;503(2):308-18.
Additional References at PubMed
PMID:11329178   PMID:12669065   PMID:15150161   PMID:15620359   PMID:16982420   PMID:17292328   PMID:17823315   PMID:18755801   PMID:19139271   PMID:19816407   PMID:20615874   PMID:21532576  
PMID:21642956   PMID:21788371   PMID:22671294   PMID:25565602   PMID:26621873   PMID:27805570   PMID:30790215  


Genomics

Comparative Map Data
Nlgn3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X70,469,251 - 70,497,380 (+)NCBIGRCr8
mRatBN7.2X66,427,926 - 66,457,378 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX66,429,458 - 66,451,876 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX67,912,829 - 67,935,228 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X71,413,217 - 71,435,616 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X68,974,124 - 68,996,518 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X71,199,390 - 71,227,460 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX71,199,491 - 71,222,732 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X72,051,846 - 72,075,119 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X89,376,193 - 89,398,665 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1X89,449,625 - 89,471,949 (+)NCBI
CeleraX66,785,377 - 66,807,774 (+)NCBICelera
Cytogenetic MapXq22NCBI
NLGN3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X71,144,841 - 71,175,307 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX71,144,821 - 71,175,255 (+)EnsemblGRCh38hg38GRCh38
GRCh37X70,364,691 - 70,391,051 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X70,281,436 - 70,307,776 (+)NCBINCBI36Build 36hg18NCBI36
Build 34X70,147,731 - 70,174,070NCBI
CeleraX70,718,556 - 70,744,930 (+)NCBICelera
Cytogenetic MapXq13.1NCBI
HuRefX64,183,444 - 64,209,758 (+)NCBIHuRef
CHM1_1X70,257,401 - 70,284,066 (+)NCBICHM1_1
T2T-CHM13v2.0X69,578,926 - 69,609,395 (+)NCBIT2T-CHM13v2.0
Nlgn3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X100,342,785 - 100,364,956 (+)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX100,342,774 - 100,369,569 (+)EnsemblGRCm39 Ensembl
GRCm38X101,299,179 - 101,321,350 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX101,299,168 - 101,325,963 (+)EnsemblGRCm38mm10GRCm38
MGSCv37X98,494,520 - 98,516,689 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X97,501,929 - 97,524,067 (+)NCBIMGSCv36mm8
CeleraX88,215,228 - 88,237,795 (+)NCBICelera
Cytogenetic MapXDNCBI
cM MapX43.95NCBI
Nlgn3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495547510,712,170 - 10,735,857 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495547510,712,170 - 10,735,857 (+)NCBIChiLan1.0ChiLan1.0
NLGN3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X70,822,214 - 70,848,479 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X70,825,828 - 70,852,082 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X60,413,098 - 60,439,359 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X70,469,764 - 70,496,526 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX70,469,764 - 70,496,526 (+)Ensemblpanpan1.1panPan2
NLGN3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X55,510,729 - 55,532,396 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX55,513,626 - 55,531,371 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX46,337,800 - 46,359,510 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X56,479,897 - 56,501,589 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX56,479,918 - 56,501,589 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X54,447,828 - 54,469,515 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X55,779,249 - 55,800,946 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X55,706,411 - 55,728,100 (+)NCBIUU_Cfam_GSD_1.0
Nlgn3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X46,672,077 - 46,696,110 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936762435,729 - 458,423 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936762435,729 - 458,261 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NLGN3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX57,176,103 - 57,201,461 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X57,174,506 - 57,204,770 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X64,705,492 - 64,727,915 (+)NCBISscrofa10.2Sscrofa10.2susScr3
NLGN3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X60,941,371 - 60,967,942 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX60,941,654 - 60,967,936 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660652,802,397 - 2,828,656 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Nlgn3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046249031,438,428 - 1,463,172 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046249031,437,663 - 1,465,955 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Nlgn3
26 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:422
Count of miRNA genes:106
Interacting mature miRNAs:122
Transcripts:ENSRNOT00000005077, ENSRNOT00000005102, ENSRNOT00000042648, ENSRNOT00000050672
Prediction methods:Microtar, Miranda, Pita, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X14843113120568734Rat
61431Cia19Collagen induced arthritis QTL 194.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X65612192120568734Rat
738035Stresp1Stress response QTL 14.960.000011stress-related behavior trait (VT:0010451)defensive burying - copingX41304447112935181Rat
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X41052407146860749Rat

Markers in Region
RH79662  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X66,427,531 - 66,427,714 (+)MAPPERmRatBN7.2
Rnor_6.0X71,197,572 - 71,197,754NCBIRnor6.0
Rnor_5.0X72,050,050 - 72,050,232UniSTSRnor5.0
RGSC_v3.4X89,374,249 - 89,374,431UniSTSRGSC3.4
CeleraX66,783,433 - 66,783,615UniSTS
Cytogenetic MapXq31UniSTS
MARC_10371-10372:999098922:1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X66,449,655 - 66,449,979 (+)MAPPERmRatBN7.2
Rnor_6.0X71,219,732 - 71,220,055NCBIRnor6.0
Rnor_5.0X72,071,783 - 72,072,106UniSTSRnor5.0
RGSC_v3.4X89,396,446 - 89,396,769UniSTSRGSC3.4
CeleraX66,805,555 - 66,805,878UniSTS
Cytogenetic MapXq31UniSTS


Genetic Models
This gene Nlgn3 is modified in the following models/strains:
SD-Nlgn3em1Sage    


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001431657 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001431658 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_134336 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_197237 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_197238 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_197239 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006257054 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006257055 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_010061164 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_010061165 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_010061166 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_010061167 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_010061168 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_010061169 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide CB771914 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473966 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000021 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U41663 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000005077   ⟹   ENSRNOP00000005077
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX66,429,476 - 66,451,876 (+)Ensembl
Rnor_6.0 EnsemblX71,199,516 - 71,222,006 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000005102   ⟹   ENSRNOP00000005102
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX66,429,458 - 66,451,876 (+)Ensembl
Rnor_6.0 EnsemblX71,199,532 - 71,222,732 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000076168   ⟹   ENSRNOP00000068393
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX66,429,458 - 66,451,876 (+)Ensembl
Rnor_6.0 EnsemblX71,199,491 - 71,220,041 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000108642   ⟹   ENSRNOP00000080050
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX66,429,476 - 66,451,876 (+)Ensembl
RefSeq Acc Id: NM_134336   ⟹   NP_599163
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X70,469,478 - 70,491,878 (+)NCBI
mRatBN7.2X66,429,476 - 66,451,876 (+)NCBI
Rnor_6.0X71,199,516 - 71,221,951 (+)NCBI
Rnor_5.0X72,051,846 - 72,075,119 (+)NCBI
RGSC_v3.4X89,376,193 - 89,398,665 (+)RGD
CeleraX66,785,377 - 66,807,774 (+)RGD
Sequence:
RefSeq Acc Id: XM_006257054   ⟹   XP_006257116
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X70,469,251 - 70,495,548 (+)NCBI
mRatBN7.2X66,427,926 - 66,452,659 (+)NCBI
Rnor_6.0X71,199,390 - 71,222,734 (+)NCBI
Rnor_5.0X72,051,846 - 72,075,119 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006257055   ⟹   XP_006257117
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X70,469,251 - 70,495,548 (+)NCBI
mRatBN7.2X66,427,926 - 66,452,659 (+)NCBI
Rnor_6.0X71,199,390 - 71,222,734 (+)NCBI
Rnor_5.0X72,051,846 - 72,075,119 (+)NCBI
Sequence:
RefSeq Acc Id: XR_010061164
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X70,469,251 - 70,497,380 (+)NCBI
RefSeq Acc Id: XR_010061165
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X70,469,251 - 70,497,380 (+)NCBI
RefSeq Acc Id: XR_010061166
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X70,469,251 - 70,497,380 (+)NCBI
RefSeq Acc Id: XR_010061167
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X70,469,251 - 70,497,380 (+)NCBI
RefSeq Acc Id: XR_010061168
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X70,469,251 - 70,497,380 (+)NCBI
RefSeq Acc Id: XR_010061169
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X70,469,251 - 70,497,380 (+)NCBI
RefSeq Acc Id: NP_599163   ⟸   NM_134336
- Peptide Label: precursor
- UniProtKB: Q62889 (UniProtKB/Swiss-Prot),   F1LPZ8 (UniProtKB/TrEMBL),   A6IQB3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006257116   ⟸   XM_006257054
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006257117   ⟸   XM_006257055
- Peptide Label: isoform X2
- Sequence:
Ensembl Acc Id: ENSRNOP00000005077   ⟸   ENSRNOT00000005077
Ensembl Acc Id: ENSRNOP00000005102   ⟸   ENSRNOT00000005102
Ensembl Acc Id: ENSRNOP00000068393   ⟸   ENSRNOT00000076168
Ensembl Acc Id: ENSRNOP00000080050   ⟸   ENSRNOT00000108642
Protein Domains
Carboxylesterase type B

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q62889-F1-model_v2 AlphaFold Q62889 1-848 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13701879
Promoter ID:EPDNEW_R12399
Type:single initiation site
Name:Nlgn3_1
Description:neuroligin 3
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0X71,199,501 - 71,199,561EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621119 AgrOrtholog
BioCyc Gene G2FUF-2102 BioCyc
Ensembl Genes ENSRNOG00000003812 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000005077.6 UniProtKB/TrEMBL
  ENSRNOT00000005102.5 UniProtKB/TrEMBL
  ENSRNOT00000076168.3 UniProtKB/TrEMBL
  ENSRNOT00000108642.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.1820 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro AB_hydrolase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CarbesteraseB UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Carboxylesterase_B_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Neuroligin/BSAL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Nlgn UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:171297 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 171297 ENTREZGENE
PANTHER NEUROLIGIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR43903:SF4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam COesterase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Nlgn3 PhenoGen
PRINTS NEUROLIGIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE CARBOXYLESTERASE_B_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000003812 RatGTEx
Superfamily-SCOP SSF53474 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A096MK63 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I5ZNW2_RAT UniProtKB/TrEMBL
  A6IQB3 ENTREZGENE, UniProtKB/TrEMBL
  A6IQB4_RAT UniProtKB/TrEMBL
  D3ZDC0 ENTREZGENE, UniProtKB/TrEMBL
  F1LPZ8 ENTREZGENE, UniProtKB/TrEMBL
  NLGN3_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-02-26 Nlgn3  neuroligin 3      Symbol and Name status set to approved 625702 APPROVED
2002-08-07 Nlgn3  neuroligin 3      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_domains contains a large esterase homology domain, a single transmembrane region, and a short cytoplasmic domain 729051
gene_function binds beta-neurexins 729051