Gatad1 (GATA zinc finger domain containing 1) - Rat Genome Database

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Gene: Gatad1 (GATA zinc finger domain containing 1) Rattus norvegicus
Analyze
Symbol: Gatad1
Name: GATA zinc finger domain containing 1
RGD ID: 1562004
Description: Predicted to enable sequence-specific DNA binding activity and zinc ion binding activity. Predicted to be involved in chromatin remodeling. Predicted to be located in nucleoplasm. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in dilated cardiomyopathy 2B. Orthologous to human GATAD1 (GATA zinc finger domain containing 1); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; amitrole.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: GATA zinc finger domain-containing protein 1; LOC500005; similar to ODAG protein
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
GRCr8431,462,251 - 31,473,827 (+)NCBIGRCr8
mRatBN7.2430,507,530 - 30,519,107 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl430,507,538 - 30,519,107 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx435,480,336 - 35,491,854 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0431,406,415 - 31,417,933 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0429,802,444 - 29,813,962 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0427,647,005 - 27,658,533 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl427,647,335 - 27,657,167 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0427,550,231 - 27,561,760 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4427,222,787 - 27,234,301 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera425,932,251 - 25,943,779 (+)NCBICelera
Cytogenetic Map4q13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
nucleoplasm  (IEA,ISO)
nucleus  (IBA,ISO)

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. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
3. GOA pipeline RGD automated data pipeline
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
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:20850016   PMID:21965549   PMID:26671628  


Genomics

Comparative Map Data
Gatad1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8431,462,251 - 31,473,827 (+)NCBIGRCr8
mRatBN7.2430,507,530 - 30,519,107 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl430,507,538 - 30,519,107 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx435,480,336 - 35,491,854 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0431,406,415 - 31,417,933 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0429,802,444 - 29,813,962 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0427,647,005 - 27,658,533 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl427,647,335 - 27,657,167 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0427,550,231 - 27,561,760 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4427,222,787 - 27,234,301 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera425,932,251 - 25,943,779 (+)NCBICelera
Cytogenetic Map4q13NCBI
GATAD1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38792,447,482 - 92,495,769 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl792,447,482 - 92,460,075 (+)EnsemblGRCh38hg38GRCh38
GRCh37792,076,796 - 92,089,389 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36791,914,701 - 91,926,678 (+)NCBINCBI36Build 36hg18NCBI36
Celera786,781,302 - 86,793,279 (+)NCBICelera
Cytogenetic Map7q21.2NCBI
HuRef786,685,108 - 86,697,727 (+)NCBIHuRef
CHM1_1792,006,801 - 92,019,417 (+)NCBICHM1_1
T2T-CHM13v2.0793,688,797 - 93,735,947 (+)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v2791,405,972 - 91,418,591 (+)NCBI
Gatad1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3953,689,961 - 3,697,936 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl53,682,932 - 3,707,185 (-)EnsemblGRCm39 Ensembl
GRCm3853,639,961 - 3,647,936 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl53,632,932 - 3,657,185 (-)EnsemblGRCm38mm10GRCm38
MGSCv3753,639,961 - 3,647,936 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3653,645,975 - 3,653,923 (-)NCBIMGSCv36mm8
Celera53,575,509 - 3,583,484 (-)NCBICelera
Cytogenetic Map5A1NCBI
cM Map52.26NCBI
Gatad1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554329,389,020 - 9,398,791 (+)NCBIChiLan1.0ChiLan1.0
GATAD1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v26110,330,330 - 110,381,182 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan17158,596,248 - 158,643,211 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0784,445,039 - 84,456,781 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1798,031,816 - 98,085,290 (+)NCBIpanpan1.1PanPan1.1panPan2
GATAD1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11418,043,857 - 18,054,340 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1418,043,671 - 18,052,979 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1417,604,933 - 17,615,422 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01417,850,606 - 17,861,100 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1417,850,425 - 17,859,772 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11418,011,333 - 18,021,802 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01417,723,542 - 17,734,026 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01417,997,377 - 18,007,867 (+)NCBIUU_Cfam_GSD_1.0
Gatad1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440511831,438,332 - 31,451,660 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049368031,348,238 - 1,361,566 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GATAD1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl972,360,483 - 72,368,607 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1972,360,321 - 72,370,064 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2979,089,663 - 79,098,726 (+)NCBISscrofa10.2Sscrofa10.2susScr3
GATAD1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12156,564,766 - 56,574,634 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2156,565,360 - 56,574,161 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604247,705,806 - 47,715,542 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Gatad1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624809735,399 - 746,723 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624809724,032 - 746,944 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Gatad1
15 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:206
Count of miRNA genes:147
Interacting mature miRNAs:164
Transcripts:ENSRNOT00000011666, ENSRNOT00000067376
Prediction methods:Microtar, Miranda, Rnahybrid
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
9589097Slep11Serum leptin concentration QTL 115.090.001blood leptin amount (VT:0005667)plasma leptin level (CMO:0000781)4131934116Rat
8552903Pigfal2Plasma insulin-like growth factor 1 level QTL 27.3blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)4131934116Rat
9589046Scfw2Subcutaneous fat weight QTL 25.540.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)4131934116Rat
9590100Sffal4Serum free fatty acids level QTL 47.360.05blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)4131934116Rat
738021Hcar13Hepatocarcinoma resistance QTL 134.3liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)4132584199Rat
1357341Gluco5Glucose level QTL 56.4adipocyte free fatty acid secretion trait (VT:0010465)absolute change in adipocyte free fatty acid secretion per unit volume (CMO:0001446)4133250345Rat
1357343Gluco4Glucose level QTL 40.00002adipocyte glucose uptake trait (VT:0004185)adipocyte maximal glucose uptake to basal glucose uptake ratio (CMO:0000874)4133250345Rat
61415Eae11Experimental allergic encephalomyelitis QTL 112.9nervous system integrity trait (VT:0010566)post-insult time to onset of experimental autoimmune encephalomyelitis (CMO:0001422)4139505420Rat
634323Hc2Hypercalciuria QTL 22.15urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)421079645210796Rat
619616Bp79Blood pressure QTL 790.0292arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)4521460278882945Rat
2303168Bp330Blood pressure QTL 3304.250.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)45214602146446691Rat
2302371Stl22Serum triglyceride level QTL 225.15blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)4521829457114705Rat
1358203Stl19Serum triglyceride level QTL 192.80.002blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)4521829465958103Rat
631642Stl2Serum triglyceride level QTL 23.3blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)4521917856647776Rat
631209Bw2Body weight QTL24.2retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)4994088544463908Rat
1300141Bp178Blood pressure QTL 178arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)41002490139524530Rat
6478724Anxrr35Anxiety related response QTL 350.00449defecation behavior trait (VT:0010462)defecation measurement (CMO:0000997)41008408955084089Rat
6478766Anxrr47Anxiety related response QTL 470.09637locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)41008408955084089Rat
6478769Anxrr48Anxiety related response QTL 480.02514locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)41008408955084089Rat
8694374Bw155Body weight QTL 1553.390.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)41008408955084089Rat
9590304Scort17Serum corticosterone level QTL 174.960.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)41008408955084089Rat
8552906Pigfal3Plasma insulin-like growth factor 1 level QTL 3blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)41008408955084089Rat
631261Tcas3Tongue tumor susceptibility QTL 36.88tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)41081417091360527Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)411320076180699135Rat
2303585Bw86Body weight QTL 864body mass (VT:0001259)body weight (CMO:0000012)41467806559678065Rat
2313401Anxrr27Anxiety related response QTL 27aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)41793350862933508Rat
70222Eae2Experimental allergic encephalomyelitis QTL 24.3nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)42133334339505420Rat
1354665Stl10Serum triglyceride level QTL 103.57blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)42133334344463908Rat
61412Pia2Pristane induced arthritis QTL 23.9joint integrity trait (VT:0010548)post-insult time to onset of experimental arthritis (CMO:0001450)42133334362278020Rat
8552803Bw144Body weight QTL 14416body mass (VT:0001259)change in body weight to body weight ratio (CMO:0002216)42271068534430484Rat
6909122Insul22Insulin level QTL 224.63blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)42690728575585128Rat
6909128Pancm4Pancreatic morphology QTL 411.35pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)42690728575585128Rat
8655906Rf60Renal function QTL 603.8blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)42949419581006281Rat


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


Reference Sequences
RefSeq Acc Id: ENSRNOT00000067376   ⟹   ENSRNOP00000060484
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl430,507,538 - 30,519,107 (+)Ensembl
Rnor_6.0 Ensembl427,647,335 - 27,657,167 (+)Ensembl
RefSeq Acc Id: NM_001399652   ⟹   NP_001386581
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8431,462,309 - 31,473,827 (+)NCBI
mRatBN7.2430,507,589 - 30,519,107 (+)NCBI
RefSeq Acc Id: XM_006236076   ⟹   XP_006236138
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8431,462,251 - 31,472,244 (+)NCBI
mRatBN7.2430,507,530 - 30,517,516 (+)NCBI
Rnor_6.0427,647,005 - 27,656,970 (+)NCBI
Rnor_5.0427,550,231 - 27,561,760 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001386581 (Get FASTA)   NCBI Sequence Viewer  
  XP_006236138 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH88430 (Get FASTA)   NCBI Sequence Viewer  
  EDL84365 (Get FASTA)   NCBI Sequence Viewer  
  EDL84366 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000060484
  ENSRNOP00000060484.2
Reference Protein Sequences
RefSeq Acc Id: XP_006236138   ⟸   XM_006236076
- Peptide Label: isoform X1
- UniProtKB: A6K284 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000060484   ⟸   ENSRNOT00000067376
RefSeq Acc Id: NP_001386581   ⟸   NM_001399652
- UniProtKB: D3ZHD5 (UniProtKB/TrEMBL),   A6K283 (UniProtKB/TrEMBL),   D4A3T2 (UniProtKB/TrEMBL)
Protein Domains
GATA-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A3T2-F1-model_v2 AlphaFold D4A3T2 1-264 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1562004 AgrOrtholog
BioCyc Gene G2FUF-45764 BioCyc
Ensembl Genes ENSRNOG00000008613 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000067376 ENTREZGENE
  ENSRNOT00000067376.4 UniProtKB/TrEMBL
Gene3D-CATH 2.30.30.490 UniProtKB/TrEMBL
  3.30.50.10 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7124558 IMAGE-MGC_LOAD
InterPro BAH_sf UniProtKB/TrEMBL
  GATAD1 UniProtKB/TrEMBL
  Znf_GATA UniProtKB/TrEMBL
  Znf_NHR/GATA UniProtKB/TrEMBL
MGC_CLONE MGC:95061 IMAGE-MGC_LOAD
NCBI Gene 500005 ENTREZGENE
PANTHER GATA ZINC FINGER DOMAIN-CONTAINING PROTEIN 1 UniProtKB/TrEMBL
  PTHR13340 UniProtKB/TrEMBL
PhenoGen Gatad1 PhenoGen
PROSITE GATA_ZN_FINGER_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000008613 RatGTEx
Superfamily-SCOP Glucocorticoid receptor-like (DNA-binding domain) UniProtKB/TrEMBL
UniProt A6K283 ENTREZGENE, UniProtKB/TrEMBL
  A6K284 ENTREZGENE, UniProtKB/TrEMBL
  D3ZHD5 ENTREZGENE
  D4A3T2 ENTREZGENE, UniProtKB/TrEMBL
  Q5M7V0_RAT UniProtKB/TrEMBL
UniProt Secondary D3ZHD5 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-05 Gatad1  GATA zinc finger domain containing 1  LOC500005  similar to ODAG protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-02-09 LOC500005  similar to ODAG protein      Symbol and Name status set to provisional 70820 PROVISIONAL