Glra3 (glycine receptor, alpha 3 subunit) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Glra3 (glycine receptor, alpha 3 subunit) Mus musculus
Analyze
Symbol: Glra3
Name: glycine receptor, alpha 3 subunit
RGD ID: 732841
MGI Page MGI
Description: Predicted to enable extracellularly glycine-gated chloride channel activity and glycine-gated chloride ion channel activity. Predicted to contribute to chloride channel activity. Involved in presynaptic modulation of chemical synaptic transmission. Located in presynapse. Is active in glycinergic synapse and presynaptic membrane. Is expressed in central nervous system and eye. Orthologous to human GLRA3 (glycine receptor alpha 3).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: glycine receptor subunit alpha-3
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39856,393,454 - 56,583,111 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl856,393,495 - 56,583,105 (+)EnsemblGRCm39 Ensembl
GRCm38855,940,418 - 56,130,070 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl855,940,460 - 56,130,070 (+)EnsemblGRCm38mm10GRCm38
MGSCv37858,419,622 - 58,604,149 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36858,833,046 - 59,017,494 (+)NCBIMGSCv36mm8
Celera858,599,340 - 58,782,315 (+)NCBICelera
Cytogenetic Map8B2NCBI
cM Map829.69NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Phenotype Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Electronic Transfer of Homolog Data MGD and Homologene mouse data transfer
2. MGDs mouse GO annotations MGD data from the GO Consortium
3. MGD IEA MGD IEA
4. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
5. Mouse MP Annotation Import Pipeline RGD automated import pipeline
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:1679744   PMID:7894176   PMID:9051263   PMID:10198177   PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:11457589   PMID:12975813   PMID:15131310   PMID:16141072  
PMID:16141073   PMID:16317347   PMID:16420443   PMID:16846696   PMID:17154252   PMID:17920294   PMID:18721822   PMID:19528249   PMID:19723286   PMID:19723784   PMID:19915732   PMID:20092571  
PMID:20978350   PMID:21267068   PMID:21486794   PMID:21486797   PMID:21491433   PMID:21677750   PMID:21850450   PMID:21873635   PMID:22399754   PMID:22585736   PMID:22723691   PMID:22937132  
PMID:22988142   PMID:24316136   PMID:24952961   PMID:26832918   PMID:26851771   PMID:27208792   PMID:27270175   PMID:27568567   PMID:27891689   PMID:28784756   PMID:29203410   PMID:34264571  
PMID:35535852   PMID:37598301  


Genomics

Comparative Map Data
Glra3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39856,393,454 - 56,583,111 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl856,393,495 - 56,583,105 (+)EnsemblGRCm39 Ensembl
GRCm38855,940,418 - 56,130,070 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl855,940,460 - 56,130,070 (+)EnsemblGRCm38mm10GRCm38
MGSCv37858,419,622 - 58,604,149 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36858,833,046 - 59,017,494 (+)NCBIMGSCv36mm8
Celera858,599,340 - 58,782,315 (+)NCBICelera
Cytogenetic Map8B2NCBI
cM Map829.69NCBI
GLRA3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh384174,636,920 - 174,829,247 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl4174,636,920 - 174,829,247 (-)EnsemblGRCh38hg38GRCh38
GRCh374175,558,071 - 175,750,398 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 364175,799,773 - 175,987,040 (-)NCBINCBI36Build 36hg18NCBI36
Build 344175,938,939 - 176,125,108NCBI
Celera4172,892,194 - 173,079,664 (-)NCBICelera
Cytogenetic Map4q34.1NCBI
HuRef4171,312,700 - 171,499,685 (-)NCBIHuRef
CHM1_14175,539,655 - 175,726,888 (-)NCBICHM1_1
T2T-CHM13v2.04177,976,596 - 178,167,115 (-)NCBIT2T-CHM13v2.0
Glra3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81639,210,534 - 39,857,332 (-)NCBIGRCr8
mRatBN7.21634,199,937 - 34,848,773 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1634,204,811 - 34,848,753 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1637,818,045 - 38,456,539 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01641,229,424 - 41,873,842 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01637,466,936 - 38,090,377 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01637,676,959 - 37,908,221 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1637,676,962 - 38,063,821 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01637,482,429 - 37,711,434 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41637,741,192 - 37,854,773 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11637,741,266 - 37,850,505 (+)NCBI
Celera1634,134,149 - 34,174,150 (-)NCBICelera
Cytogenetic Map16p11NCBI
Glra3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540332,304,178 - 32,445,135 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540332,304,178 - 32,445,135 (+)NCBIChiLan1.0ChiLan1.0
GLRA3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v23172,396,653 - 172,579,346 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan14172,777,048 - 172,959,364 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v04166,865,061 - 167,045,844 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.14179,103,608 - 179,279,618 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl4179,083,211 - 179,279,232 (-)Ensemblpanpan1.1panPan2
GLRA3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12525,098,280 - 25,305,511 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2525,131,250 - 25,305,027 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2525,783,206 - 25,957,841 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02525,261,937 - 25,469,138 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2525,294,466 - 25,469,586 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12525,195,872 - 25,403,554 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02525,098,834 - 25,305,712 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02525,250,704 - 25,458,008 (-)NCBIUU_Cfam_GSD_1.0
Glra3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494325,271,880 - 25,441,407 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365165,693,894 - 5,855,755 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365165,692,535 - 5,855,694 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GLRA3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1415,423,767 - 15,595,422 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11415,120,091 - 15,603,509 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21416,573,210 - 16,788,071 (+)NCBISscrofa10.2Sscrofa10.2susScr3
GLRA3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.17120,736,513 - 120,913,640 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666037100,805,675 - 100,979,028 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Glra3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247696,291,924 - 6,444,131 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247696,274,213 - 6,444,553 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Glra3
7000 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:278
Count of miRNA genes:226
Interacting mature miRNAs:249
Transcripts:ENSMUST00000000275, ENSMUST00000164020
Prediction methods:Miranda, 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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1558870Eae36_mexperimental allergic encephalomyelitis susceptibility 36 (mouse)Not determined81477316071498244Mouse
10043974Obq30_mobesity QTL 30 (mouse)Not determined82658332260583322Mouse
1357811Orq3_movulation rate QTL 3 (mouse)Not determined83250657271740637Mouse
4140966Egq12_mearly growth QTL 12 (mouse)Not determined3250657271740637Mouse
4141437W10q14_mweight 10 weeks QTL 14 (mouse)Not determined3250657271740637Mouse
4141172W6q9_mweight 6 weeks QTL 9 (mouse)Not determined3250657271740637Mouse
4140967Bmd39_mbone mineral density 39 (mouse)Not determined832506572117965439Mouse
1301936Trigq2_mtriglyceride QTL 2 (mouse)Not determined83429039768290537Mouse
1558875Eae31_mexperimental allergic encephalomyelitis susceptibility 31 (mouse)Not determined835109930115563747Mouse
11041902Lmr10a_mleishmaniasis resistance 10a (mouse)83532109757797633Mouse
11049578Lmr10c_mleishmaniasis resistance 10c (mouse)83532109757797633Mouse
11049577Lmr10b_mleishmaniasis resistance 10b (mouse)83532109757797633Mouse
1301139Lmr10_mleishmaniasis resistance 10 (mouse)Not determined83532109757797633Mouse
1301013Capsq4_mcapsaicin sensitivity related QTL 4 (mouse)Not determined83663015493455280Mouse
27226754Femd6_mfemur midshaft diameter 6, 10 week (mouse)837867154110326632Mouse
12904744Carcdq1_mcardiac collagen deposition QTL 1 (mouse)84016229795416226Mouse
1301544Iba3_minduction of brown adipocytes 3 (mouse)Not determined84474791478748059Mouse
10766453Char11_mP. chabaudi malaria resistance QTL 11 (mouse)84809006482090180Mouse
1301717Adip4_madiposity 4 (mouse)Not determined84809006482090180Mouse
1301441Skull11_mskull morphology 11 (mouse)Not determined84819016882190288Mouse
1357715Alaa3_malopecia areata 3 (mouse)Not determined84924559183245673Mouse
14746987Manh64_mmandible shape 64 (mouse)85050595884505958Mouse
14747005Mancz7_mmandible centroid size 7 (mouse)85050595884505958Mouse
14700686Civq3_mcerebral infarct volume QTL 3 (mouse)85233484386334843Mouse
1301506Aevm1_mautoimmune extremity vasculitis in MRL mice 1 (mouse)Not determined85474046188740637Mouse
1301952Im3_mimmunoregulatory 3 (mouse)Not determined85515925889159407Mouse
10412287Carg3_mCandida albicans resistance gene 3 (mouse)Not determined85629887290298872Mouse

Markers in Region
Glra3  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38856,085,149 - 56,085,240UniSTSGRCm38
MGSCv37858,563,946 - 58,564,037UniSTSGRCm37
Celera858,741,977 - 58,742,068UniSTS
Cytogenetic Map8B2UniSTS
cM Map826.0UniSTS


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000000275   ⟹   ENSMUSP00000000275
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl856,393,544 - 56,583,105 (+)Ensembl
GRCm38.p6 Ensembl855,940,509 - 56,130,070 (+)Ensembl
RefSeq Acc Id: ENSMUST00000164020
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl856,393,495 - 56,497,845 (+)Ensembl
GRCm38.p6 Ensembl855,940,460 - 56,044,810 (+)Ensembl
RefSeq Acc Id: ENSMUST00000239388   ⟹   ENSMUSP00000159349
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl856,393,860 - 56,578,387 (+)Ensembl
GRCm38.p6 Ensembl855,940,825 - 56,125,352 (+)Ensembl
RefSeq Acc Id: NM_001368774   ⟹   NP_001355703
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39856,393,454 - 56,583,111 (+)NCBI
GRCm38855,940,418 - 56,130,070 (+)NCBI
Sequence:
RefSeq Acc Id: NM_080438   ⟹   NP_536686
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39856,393,454 - 56,583,111 (+)NCBI
GRCm38855,940,418 - 56,130,070 (+)NCBI
MGSCv37858,419,622 - 58,604,149 (+)RGD
Celera858,599,340 - 58,782,315 (+)RGD
cM Map8 ENTREZGENE
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_536686   ⟸   NM_080438
- Peptide Label: isoform 1 precursor
- UniProtKB: Q91XP5 (UniProtKB/Swiss-Prot),   Q7TSQ2 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001355703   ⟸   NM_001368774
- Peptide Label: isoform 2 precursor
RefSeq Acc Id: ENSMUSP00000159349   ⟸   ENSMUST00000239388
RefSeq Acc Id: ENSMUSP00000000275   ⟸   ENSMUST00000000275
Protein Domains
Neurotransmitter-gated ion-channel ligand-binding   Neurotransmitter-gated ion-channel transmembrane

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q91XP5-F1-model_v2 AlphaFold Q91XP5 1-464 view protein structure

Promoters
RGD ID:8667097
Promoter ID:EPDNEW_M11580
Type:single initiation site
Name:Glra3_1
Description:Mus musculus glycine receptor, alpha 3 subunit , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38855,940,891 - 55,940,951EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:95749 AgrOrtholog
Ensembl Genes ENSMUSG00000038257 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000000275 ENTREZGENE, UniProtKB/TrEMBL
  ENSMUST00000000275.10 UniProtKB/Swiss-Prot
  ENSMUST00000239388.2 UniProtKB/TrEMBL
Gene3D-CATH 1.20.58.390 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  2.70.170.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro GABAA/Glycine_rcpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Glycine_rcpt_A UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Glycine_rcpt_A3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Neur_chan_lig-bd UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Neur_chan_lig-bd_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Neur_channel UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Neuro-gated_channel_TM_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Neuro_actylchol_rec UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Neurotrans-gated_channel_TM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Neurotransmitter_ion_chnl_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:110304 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:95749 ENTREZGENE
NCBI Gene 110304 ENTREZGENE
PANTHER GLYCINE RECEPTOR SUBUNIT ALPHA-3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR18945 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Neur_chan_LBD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Neur_chan_memb UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Glra3 PhenoGen
PRINTS GABAARECEPTR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GLYRALPHA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GLYRALPHA3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NRIONCHANNEL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE NEUROTR_ION_CHANNEL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF63712 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF90112 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt G5E811_MOUSE UniProtKB/TrEMBL
  GLRA3_MOUSE UniProtKB/Swiss-Prot
  Q7TSQ2 ENTREZGENE
  Q91XP5 ENTREZGENE
  Q9JL29_MOUSE UniProtKB/TrEMBL
UniProt Secondary Q7TSQ2 UniProtKB/Swiss-Prot