Gatd3a (glutamine amidotransferase class 1 domain containing 3A) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Gatd3a (glutamine amidotransferase class 1 domain containing 3A) Rattus norvegicus
Analyze
Symbol: Gatd3a
Name: glutamine amidotransferase class 1 domain containing 3A
RGD ID: 1303003
Description: Predicted to be active in mitochondrion. Orthologous to human GATD3 (glutamine amidotransferase class 1 domain containing 3); INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; acetamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: C21orf33; ES1; ES1 protein homolog, mitochondrial; glutamine amidotransferase like class 1 domain containing 3A; homolog of zebrafish ES1; MGC94888; RGD1303003
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22010,514,793 - 10,522,894 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2010,514,744 - 10,522,885 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2011,213,822 - 11,221,945 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02010,574,715 - 10,582,838 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02011,047,059 - 11,055,158 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02011,244,353 - 11,252,450 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2011,244,353 - 11,252,449 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02013,414,047 - 13,422,144 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42010,851,555 - 10,859,652 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12010,851,781 - 10,859,878 (+)NCBI
Celera2012,021,172 - 12,029,269 (+)NCBICelera
Cytogenetic Map20p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
mitochondrion  (IBA,IEA)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. 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.
2. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. Comprehensive gene review and curation RGD comprehensive gene curation
5. Information Derived from GenBank Report RGD, Sept. 2003
6. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:10344264   PMID:14651853   PMID:15489334   PMID:18614015  


Genomics

Comparative Map Data
Gatd3a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22010,514,793 - 10,522,894 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2010,514,744 - 10,522,885 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2011,213,822 - 11,221,945 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02010,574,715 - 10,582,838 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02011,047,059 - 11,055,158 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02011,244,353 - 11,252,450 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2011,244,353 - 11,252,449 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02013,414,047 - 13,422,144 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42010,851,555 - 10,859,652 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12010,851,781 - 10,859,878 (+)NCBI
Celera2012,021,172 - 12,029,269 (+)NCBICelera
Cytogenetic Map20p12NCBI
GATD3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382144,133,683 - 44,145,711 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2144,133,610 - 44,210,114 (+)EnsemblGRCh38hg38GRCh38
GRCh372145,553,565 - 45,565,593 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362144,377,922 - 44,390,033 (+)NCBINCBI36Build 36hg18NCBI36
Build 342144,377,923 - 44,390,020NCBI
Celera2130,659,152 - 30,671,262 (+)NCBICelera
Cytogenetic Map21q22.3NCBI
HuRef2130,923,773 - 30,935,884 (+)NCBIHuRef
CHM1_12145,114,364 - 45,126,476 (+)NCBICHM1_1
T2T-CHM13v2.02142,486,669 - 42,501,326 (+)NCBIT2T-CHM13v2.0
Gatd3a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391077,997,900 - 78,005,589 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1077,997,900 - 78,005,616 (-)EnsemblGRCm39 Ensembl
GRCm381078,162,066 - 78,169,755 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1078,162,066 - 78,169,782 (-)EnsemblGRCm38mm10GRCm38
MGSCv371077,624,812 - 77,632,513 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361077,565,196 - 77,572,897 (-)NCBIMGSCv36mm8
Celera1079,201,482 - 79,209,183 (-)NCBICelera
Cytogenetic Map10C1NCBI
cM Map1039.72NCBI
Gatd3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540741,247,687 - 41,254,884 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540741,247,749 - 41,255,369 (-)NCBIChiLan1.0ChiLan1.0
GATD3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan12134,992,337 - 35,004,316 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02130,391,586 - 30,403,698 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12143,687,464 - 43,699,536 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2143,687,461 - 43,699,536 (+)Ensemblpanpan1.1panPan2
GATD3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13138,028,087 - 38,037,173 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3137,185,631 - 37,194,697 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03137,575,835 - 37,584,881 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3137,570,113 - 37,584,879 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13137,442,939 - 37,452,007 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03137,426,847 - 37,435,905 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03137,921,649 - 37,930,772 (+)NCBIUU_Cfam_GSD_1.0
Gatd3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440497137,226,219 - 37,235,135 (+)NCBIHiC_Itri_2
SpeTri2.0NW_004936500232,689 - 241,583 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GATD3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13207,042,952 - 207,056,770 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113207,042,929 - 207,051,814 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213216,919,307 - 216,929,250 (+)NCBISscrofa10.2Sscrofa10.2susScr3
GATD3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1287,884,102 - 87,902,413 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl287,884,118 - 87,904,379 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605415,975,133 - 15,987,765 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Gatd3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474529,934,703 - 29,942,771 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474529,934,703 - 29,942,789 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Gatd3a
50 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:288
Count of miRNA genes:171
Interacting mature miRNAs:191
Transcripts:ENSRNOT00000001609
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124159021Rat
1600382Edcs3Endometrial carcinoma susceptibility QTL33.50.003uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)20125159026Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20129191651Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20129191651Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20129191651Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20129191651Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20129191651Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20132578807Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600972Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600972Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20152784246527842Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20153065546530655Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)20260683647606836Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20289259726381954Rat
61432Cia1Collagen induced arthritis QTL 1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)20362165614101050Rat
4889857Pur27Proteinuria QTL 2712.20.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20460660717617956Rat
1558640Prcs2Prostate cancer susceptibility QTL 23.3prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)20460660717617956Rat
70154Insul2Insulin level QTL 23.75blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20669170617489458Rat
1581577Pur15Proteinuria QTL 154.380.0002urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)20804241017617956Rat
4889870Pur30Proteinuria QTL 30190.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20804241029322208Rat
631265Iresp1Immunoglobin response QTL18.3blood anti-double stranded DNA antibody amount (VT:0004762)serum anti-DNA antibody level (CMO:0001533)20903971913461775Rat

Markers in Region
RH129327  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22010,522,619 - 10,522,818 (+)MAPPERmRatBN7.2
Rnor_6.02011,252,176 - 11,252,374NCBIRnor6.0
Rnor_5.02013,421,870 - 13,422,068UniSTSRnor5.0
RGSC_v3.42010,859,378 - 10,859,576UniSTSRGSC3.4
Celera2012,028,995 - 12,029,193UniSTS
RH 3.4 Map20151.8UniSTS
Cytogenetic Map20p12UniSTS
RH142015  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22010,513,320 - 10,513,515 (+)MAPPERmRatBN7.2
Rnor_6.02011,242,881 - 11,243,075NCBIRnor6.0
Rnor_5.02013,412,575 - 13,412,769UniSTSRnor5.0
RGSC_v3.42010,850,083 - 10,850,277UniSTSRGSC3.4
Celera2012,019,700 - 12,019,894UniSTS
RH 3.4 Map20140.8UniSTS
Cytogenetic Map20p12UniSTS


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 3 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


RefSeq Acc Id: ENSRNOT00000001609   ⟹   ENSRNOP00000001609
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2010,514,744 - 10,522,885 (+)Ensembl
Rnor_6.0 Ensembl2011,244,353 - 11,252,449 (+)Ensembl
RefSeq Acc Id: NM_001004225   ⟹   NP_001004225
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22010,514,793 - 10,522,894 (+)NCBI
Rnor_6.02011,244,353 - 11,252,450 (+)NCBI
Rnor_5.02013,414,047 - 13,422,144 (+)NCBI
RGSC_v3.42010,851,555 - 10,859,652 (+)RGD
Celera2012,021,172 - 12,029,269 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001004225 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH79380 (Get FASTA)   NCBI Sequence Viewer  
  EDL97058 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000001609
  ENSRNOP00000001609.4
  ENSRNOP00055030532
  ENSRNOP00060030781
  ENSRNOP00065034948
GenBank Protein P56571 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001004225   ⟸   NM_001004225
- Peptide Label: precursor
- UniProtKB: Q68FS5 (UniProtKB/Swiss-Prot),   P56571 (UniProtKB/Swiss-Prot),   A6JK42 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000001609   ⟸   ENSRNOT00000001609

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P56571-F1-model_v2 AlphaFold P56571 1-266 view protein structure

Transcriptome

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

Promoters
RGD ID:13701488
Promoter ID:EPDNEW_R12012
Type:multiple initiation site
Name:RGD1303003_1
Description:homolog of zebrafish ES1
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_6.02011,244,337 - 11,244,397EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1303003 AgrOrtholog
BioCyc Gene G2FUF-4277 BioCyc
Ensembl Genes ENSRNOG00000001211 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00055021839 UniProtKB/Swiss-Prot
  ENSRNOG00060021537 UniProtKB/Swiss-Prot
  ENSRNOG00065024861 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000001609 ENTREZGENE
  ENSRNOT00000001609.5 UniProtKB/TrEMBL
  ENSRNOT00055037449 UniProtKB/Swiss-Prot
  ENSRNOT00060037318 UniProtKB/Swiss-Prot
  ENSRNOT00065042694 UniProtKB/Swiss-Prot
Gene3D-CATH 3.40.50.880 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7110981 IMAGE-MGC_LOAD
InterPro Class_I_gatase-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:294326 UniProtKB/Swiss-Prot
MGC_CLONE MGC:94888 IMAGE-MGC_LOAD
NCBI Gene 294326 ENTREZGENE
PANTHER ES1 PROTEIN HOMOLOG, MITOCHONDRIAL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GLUTAMINE AMIDOTRANSFERASE-LIKE CLASS 1 DOMAIN-CONTAINING PROTEIN 3A, MITOCHONDRIAL-RELATED UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Gatd3a PhenoGen
RatGTEx ENSRNOG00000001211 RatGTEx
  ENSRNOG00055021839 RatGTEx
  ENSRNOG00060021537 RatGTEx
  ENSRNOG00065024861 RatGTEx
Superfamily-SCOP SSF52317 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8L2Q046_RAT UniProtKB/TrEMBL
  A6JK42 ENTREZGENE, UniProtKB/TrEMBL
  ES1_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q68FS5 ENTREZGENE
UniProt Secondary Q68FS5 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-04-29 Gatd3a  glutamine amidotransferase class 1 domain containing 3A  Gatd3a  glutamine amidotransferase like class 1 domain containing 3A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2018-03-16 Gatd3a  glutamine amidotransferase like class 1 domain containing 3A  RGD1303003  homolog of zebrafish ES1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 RGD1303003  homolog of zebrafish ES1  C21orf33    Symbol updated 1299863 APPROVED
2005-02-14 C21orf33  homolog of zebrafish ES1      Symbol and Name status set to provisional 70820 PROVISIONAL