Gabrd (gamma-aminobutyric acid type A receptor subunit delta) - Rat Genome Database

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Gene: Gabrd (gamma-aminobutyric acid type A receptor subunit delta) Rattus norvegicus
Analyze
Symbol: Gabrd
Name: gamma-aminobutyric acid type A receptor subunit delta
RGD ID: 61901
Description: Exhibits GABA-A receptor activity. Is predicted to contribute to chloride channel activity. Involved in chemical synaptic transmission. Localizes to GABA-ergic synapse; glutamatergic synapse; and integral component of postsynaptic membrane. Human ortholog(s) of this gene implicated in idiopathic generalized epilepsy 10. Orthologous to human GABRD (gamma-aminobutyric acid type A receptor subunit delta); INTERACTS WITH (+)-pilocarpine; 1,3,5-trinitro-1,3,5-triazinane; 3alpha-hydroxy-5beta-pregnan-20-one.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: GABA(A) receptor subunit delta; GABA-A receptor delta-subunit; GABAA receptor delta subunit; GABAA-RD; gamma-aminobutyric acid (GABA) A receptor, delta; gamma-aminobutyric acid (GABA-A) receptor subunit delta; gamma-aminobutyric acid (GABA-A) receptor, subunit delta; gamma-aminobutyric acid A receptor, delta; gamma-aminobutyric acid receptor subunit delta; gamma-aminobutyric acid type A receptor delta subunit; MGC105467
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.25165,958,508 - 165,970,407 (-)NCBI
Rnor_6.0 Ensembl5172,797,450 - 172,809,353 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.05172,797,478 - 172,809,374 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.05176,255,724 - 176,267,620 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45172,203,064 - 172,214,960 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.15172,213,559 - 172,225,455 (-)NCBI
Celera5164,160,929 - 164,172,825 (-)NCBICelera
Cytogenetic Map5q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

Additional References at PubMed
PMID:1312131   PMID:1312132   PMID:1379501   PMID:2561970   PMID:8195163   PMID:12477932   PMID:14627650   PMID:15152020   PMID:15489334   PMID:15708482   PMID:15834956   PMID:16879715  
PMID:17056007   PMID:17395622   PMID:17854781   PMID:18079275   PMID:18406065   PMID:19665523   PMID:21298071   PMID:21368141   PMID:21395866   PMID:21439793   PMID:23079628   PMID:24062647  
PMID:24199598   PMID:25339733   PMID:27382064  


Genomics

Comparative Map Data
Gabrd
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.25165,958,508 - 165,970,407 (-)NCBI
Rnor_6.0 Ensembl5172,797,450 - 172,809,353 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.05172,797,478 - 172,809,374 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.05176,255,724 - 176,267,620 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45172,203,064 - 172,214,960 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.15172,213,559 - 172,225,455 (-)NCBI
Celera5164,160,929 - 164,172,825 (-)NCBICelera
Cytogenetic Map5q36NCBI
GABRD
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl12,019,329 - 2,030,758 (+)EnsemblGRCh38hg38GRCh38
GRCh3812,019,345 - 2,030,758 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh3711,950,784 - 1,962,197 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3611,940,703 - 1,952,050 (+)NCBINCBI36hg18NCBI36
Build 3411,983,004 - 1,994,352NCBI
Celera1630,843 - 641,887 (-)NCBI
Cytogenetic Map1p36.33NCBI
HuRef11,233,788 - 1,239,603 (+)NCBIHuRef
CHM1_111,937,892 - 1,949,316 (+)NCBICHM1_1
Gabrd
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394155,469,436 - 155,482,549 (-)NCBIGRCm39mm39
GRCm39 Ensembl4155,469,437 - 155,482,569 (-)Ensembl
GRCm384155,384,979 - 155,398,098 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4155,384,980 - 155,398,112 (-)EnsemblGRCm38mm10GRCm38
MGSCv374154,759,088 - 154,772,178 (-)NCBIGRCm37mm9NCBIm37
MGSCv364154,228,780 - 154,241,862 (-)NCBImm8
Celera4157,658,925 - 157,672,022 (-)NCBICelera
Cytogenetic Map4E2NCBI
Gabrd
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554869,035,330 - 9,039,557 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554869,035,330 - 9,039,553 (-)NCBIChiLan1.0ChiLan1.0
GABRD
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.111,883,955 - 1,895,102 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl11,883,955 - 1,895,102 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01731,714 - 743,165 (+)NCBIMhudiblu_PPA_v0panPan3
GABRD
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1556,984,786 - 56,994,790 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl556,984,913 - 56,994,358 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha557,061,831 - 57,077,443 (+)NCBI
ROS_Cfam_1.0557,188,326 - 57,203,524 (+)NCBI
UMICH_Zoey_3.1557,178,812 - 57,194,421 (+)NCBI
UNSW_CanFamBas_1.0557,071,329 - 57,086,939 (+)NCBI
UU_Cfam_GSD_1.0557,461,155 - 57,476,777 (+)NCBI
Gabrd
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505828,059,911 - 28,065,511 (+)NCBI
SpeTri2.0NW_0049367371,400,437 - 1,405,885 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GABRD
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl664,049,675 - 64,059,640 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1664,049,665 - 64,059,644 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2658,561,062 - 58,563,060 (+)NCBISscrofa10.2Sscrofa10.2susScr3
GABRD
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.120129,530,049 - 129,541,437 (-)NCBI
ChlSab1.1 Ensembl20129,529,108 - 129,541,580 (-)Ensembl
Gabrd
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248187,856,797 - 7,864,552 (-)NCBI

Position Markers
RH143455  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.05172,797,711 - 172,797,885NCBIRnor6.0
Rnor_5.05176,255,957 - 176,256,131UniSTSRnor5.0
RGSC_v3.45172,203,297 - 172,203,471UniSTSRGSC3.4
Celera5164,161,162 - 164,161,336UniSTS
RH 3.4 Map51161.3UniSTS
Cytogenetic Map5q36UniSTS
RH139554  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.05172,798,484 - 172,798,931NCBIRnor6.0
Rnor_5.05176,256,730 - 176,257,177UniSTSRnor5.0
RGSC_v3.45172,204,070 - 172,204,517UniSTSRGSC3.4
Celera5164,161,935 - 164,162,382UniSTS
Cytogenetic Map5q36UniSTS
BF390464  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.05172,807,785 - 172,807,996NCBIRnor6.0
Rnor_5.05176,266,031 - 176,266,242UniSTSRnor5.0
RGSC_v3.45172,213,371 - 172,213,582UniSTSRGSC3.4
Celera5164,171,236 - 164,171,447UniSTS
Cytogenetic Map5q36UniSTS
PMC23157P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.05172,801,053 - 172,801,502NCBIRnor6.0
Rnor_5.05176,259,299 - 176,259,748UniSTSRnor5.0
RGSC_v3.45172,206,639 - 172,207,088UniSTSRGSC3.4
Celera5164,164,504 - 164,164,953UniSTS
Cytogenetic Map5q36UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61444Strs2Sensitivity to stroke QTL 24.7cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)5142309061173707219Rat
724525Bp147Blood pressure QTL 1474.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5132551937173707219Rat
1331721Bp210Blood pressure QTL 2103.413arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)5149029982173687766Rat
631562Apr2Acute phase response QTL 23.7blood murinoglobulin 1 amount (VT:0010597)plasma murinoglobulin 1 level (CMO:0001931)5142307322173707219Rat
738018Anxrr4Anxiety related response QTL 45.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)5136354114173707219Rat
631272Lanf1Left ventricular atrial natriuretic factor QTL 112heart left ventricle natriuretic peptide A amount (VT:0010596)heart left ventricle natriuretic peptide A level (CMO:0002165)5157319671173707219Rat
1302790Scl20Serum cholesterol level QTL 206.40.0001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)584963058173504662Rat
1641920Colcs1Colorectal carcinoma susceptibility QTL 12.990.0055intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)5128687766173687766Rat
1598819Bp292Blood pressure QTL 2924.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5133943857173707219Rat
1598861Cm64Cardiac mass QTL 642.9heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5133943857173707219Rat
634349Bp139Blood pressure QTL 1390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5134197905173707219Rat
1549904Neuinf1Neuroinflammation QTL 130nervous system integrity trait (VT:0010566)blood T lymphocyte count (CMO:0000110)5161084664173707219Rat
7794791Mcs33Mammary carcinoma susceptibility QTL 331.93mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)5136640731173707219Rat
8552908Pigfal4Plasma insulin-like growth factor 1 level QTL 46.6blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5134712342173707219Rat
8694169Bw148Body weight QTL 14850.001body mass (VT:0001259)body weight gain (CMO:0000420)5134712342173707219Rat
10053720Scort26Serum corticosterone level QTL 262.060.0147blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)5131077716173707219Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:303
Count of miRNA genes:178
Interacting mature miRNAs:204
Transcripts:ENSRNOT00000022246
Prediction methods:Microtar, 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.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 25
Low 2 1 1 16 6
Below cutoff 3 1 7 7 2 7 4 4 17 3 12 4 4

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000022246   ⟹   ENSRNOP00000022246
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl5172,797,450 - 172,809,353 (-)Ensembl
RefSeq Acc Id: NM_017289   ⟹   NP_058985
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25165,958,508 - 165,970,407 (-)NCBI
Rnor_6.05172,797,478 - 172,809,374 (-)NCBI
Rnor_5.05176,255,724 - 176,267,620 (-)NCBI
RGSC_v3.45172,203,064 - 172,214,960 (-)RGD
Celera5164,160,929 - 164,172,825 (-)RGD
Sequence:
Reference Sequences
RefSeq Acc Id: NP_058985   ⟸   NM_017289
- Peptide Label: precursor
- UniProtKB: P18506 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000022246   ⟸   ENSRNOT00000022246

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:61901 AgrOrtholog
Ensembl Genes ENSRNOG00000016385 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000022246 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000022246 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 2.70.170.10 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7317154 IMAGE-MGC_LOAD
InterPro GABAA/Glycine_rcpt UniProtKB/Swiss-Prot
  GABAAd_rcpt UniProtKB/Swiss-Prot
  Neur_chan_lig-bd UniProtKB/Swiss-Prot
  Neur_chan_lig-bd_sf UniProtKB/Swiss-Prot
  Neur_channel UniProtKB/Swiss-Prot
  Neuro-gated_channel_TM_sf UniProtKB/Swiss-Prot
  Neurotrans-gated_channel_TM UniProtKB/Swiss-Prot
  Neurotransmitter_ion_chnl_CS UniProtKB/Swiss-Prot
KEGG Report rno:29689 UniProtKB/Swiss-Prot
MGC_CLONE MGC:105467 IMAGE-MGC_LOAD
NCBI Gene 29689 ENTREZGENE
PANTHER PTHR18945 UniProtKB/Swiss-Prot
  PTHR18945:SF34 UniProtKB/Swiss-Prot
Pfam Neur_chan_LBD UniProtKB/Swiss-Prot
  Neur_chan_memb UniProtKB/Swiss-Prot
PhenoGen Gabrd PhenoGen
PRINTS GABAARDELTA UniProtKB/Swiss-Prot
  GABAARECEPTR UniProtKB/Swiss-Prot
  NRIONCHANNEL UniProtKB/Swiss-Prot
PROSITE NEUROTR_ION_CHANNEL UniProtKB/Swiss-Prot
Superfamily-SCOP SSF63712 UniProtKB/Swiss-Prot
  SSF90112 UniProtKB/Swiss-Prot
TIGR TC220573
TIGRFAMs LIC UniProtKB/Swiss-Prot
UniProt GBRD_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-12-06 Gabrd  gamma-aminobutyric acid type A receptor subunit delta  Gabrd  gamma-aminobutyric acid type A receptor delta subunit  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-02-11 Gabrd  gamma-aminobutyric acid type A receptor delta subunit  Gabrd  gamma-aminobutyric acid (GABA) A receptor, delta  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-11-04 Gabrd  gamma-aminobutyric acid (GABA) A receptor, delta  Gabrd  gamma-aminobutyric acid (GABA-A) receptor, subunit delta  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-11 Gabrd  gamma-aminobutyric acid (GABA-A) receptor, subunit delta  Gabrd  gamma-aminobutyric acid (GABA) A receptor, delta  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-18 Gabrd  gamma-aminobutyric acid (GABA) A receptor, delta  Gabrd  gamma-aminobutyric acid A receptor, delta  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Gabrd  gamma-aminobutyric acid A receptor, delta      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference