Batf3 (basic leucine zipper ATF-like transcription factor 3) - 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: Batf3 (basic leucine zipper ATF-like transcription factor 3) Rattus norvegicus
Analyze
Symbol: Batf3
Name: basic leucine zipper ATF-like transcription factor 3
RGD ID: 620501
Description: Predicted to enable DNA-binding transcription repressor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in myeloid dendritic cell differentiation; negative regulation of transcription by RNA polymerase II; and response to virus. Predicted to be located in cytosol; nucleolus; and nucleoplasm. Predicted to be part of RNA polymerase II transcription regulator complex. Predicted to be active in nucleus. Orthologous to human BATF3 (basic leucine zipper ATF-like transcription factor 3); INTERACTS WITH 17beta-estradiol; 17beta-estradiol 3-benzoate; 2,4,6-trinitrotoluene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: B-ATF-3; basic leucine zipper transcription factor, ATF-like 3; basic leucine zipper transcriptional factor ATF-like 3; JDP-1; Jdp1; Jun dimerization protein 1; Jun dimerization protein 1 gene
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
GRCr813105,220,782 - 105,232,365 (+)NCBIGRCr8
mRatBN7.213102,689,657 - 102,701,241 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl13102,689,657 - 102,701,139 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx13105,209,731 - 105,221,314 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.013106,593,687 - 106,605,270 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.013103,808,675 - 103,820,258 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.013109,713,376 - 109,726,438 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl13109,713,489 - 109,724,863 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013114,308,705 - 114,320,081 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.413107,128,770 - 107,140,194 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.113107,317,873 - 107,329,297 (+)NCBI
Celera13102,155,014 - 102,166,267 (+)NCBICelera
Cytogenetic Map13q27NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (EXP)
17beta-estradiol 3-benzoate  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4,6-trinitrotoluene  (EXP)
3,7-dihydropurine-6-thione  (EXP)
4,4'-sulfonyldiphenol  (ISO)
6-propyl-2-thiouracil  (EXP)
acrylamide  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
amitrole  (EXP)
ammonium chloride  (EXP)
amphetamine  (EXP)
antirheumatic drug  (ISO)
benzo[a]pyrene  (ISO)
benzoates  (ISO)
bisphenol A  (EXP,ISO)
butanal  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
carbon nanotube  (ISO)
cisplatin  (ISO)
clotrimazole  (EXP)
copper(II) sulfate  (ISO)
Cuprizon  (EXP)
diallyl trisulfide  (ISO)
diethylstilbestrol  (EXP)
disodium selenite  (ISO)
dorsomorphin  (ISO)
endosulfan  (EXP)
entinostat  (ISO)
ethyl methanesulfonate  (ISO)
FR900359  (ISO)
fulvestrant  (ISO)
furan  (EXP)
genistein  (ISO)
gentamycin  (EXP)
lead(0)  (ISO)
mercaptopurine  (EXP)
methimazole  (EXP)
methyl methanesulfonate  (ISO)
methylmercury chloride  (EXP)
N-Nitrosopyrrolidine  (ISO)
nickel atom  (ISO)
O-methyleugenol  (ISO)
panobinostat  (ISO)
paracetamol  (ISO)
pentanal  (ISO)
perfluorooctanoic acid  (ISO)
phenobarbital  (ISO)
pregnenolone 16alpha-carbonitrile  (EXP)
progesterone  (ISO)
propanal  (ISO)
purine-6-thiol  (EXP)
SB 431542  (ISO)
Soman  (EXP)
sotorasib  (ISO)
sulfadimethoxine  (EXP)
sulforaphane  (ISO)
tacrolimus hydrate  (ISO)
temozolomide  (ISO)
testosterone  (EXP)
titanium dioxide  (ISO)
trametinib  (ISO)
trichloroethene  (EXP)
valproic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

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. Repression of IL-2 promoter activity by the novel basic leucine zipper p21SNFT protein. Iacobelli M, etal., J Immunol 2000 Jul 15;165(2):860-8.
3. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
4. GOA pipeline RGD automated data pipeline
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:10760603   PMID:12101239   PMID:15467742   PMID:19008445   PMID:20351058   PMID:23913046  


Genomics

Comparative Map Data
Batf3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr813105,220,782 - 105,232,365 (+)NCBIGRCr8
mRatBN7.213102,689,657 - 102,701,241 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl13102,689,657 - 102,701,139 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx13105,209,731 - 105,221,314 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.013106,593,687 - 106,605,270 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.013103,808,675 - 103,820,258 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.013109,713,376 - 109,726,438 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl13109,713,489 - 109,724,863 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013114,308,705 - 114,320,081 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.413107,128,770 - 107,140,194 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.113107,317,873 - 107,329,297 (+)NCBI
Celera13102,155,014 - 102,166,267 (+)NCBICelera
Cytogenetic Map13q27NCBI
BATF3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381212,686,417 - 212,699,840 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1212,686,417 - 212,699,840 (-)EnsemblGRCh38hg38GRCh38
GRCh371212,859,759 - 212,873,182 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361210,926,383 - 210,939,950 (-)NCBINCBI36Build 36hg18NCBI36
Celera1186,085,819 - 186,099,376 (-)NCBICelera
Cytogenetic Map1q32.3NCBI
HuRef1183,536,476 - 183,550,021 (-)NCBIHuRef
CHM1_11214,132,649 - 214,146,219 (-)NCBICHM1_1
T2T-CHM13v2.01211,931,370 - 211,944,803 (-)NCBIT2T-CHM13v2.0
Batf3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391190,830,611 - 190,841,140 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1190,830,044 - 190,841,142 (+)EnsemblGRCm39 Ensembl
GRCm381191,098,414 - 191,108,943 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1191,097,847 - 191,108,945 (+)EnsemblGRCm38mm10GRCm38
MGSCv371192,922,293 - 192,932,822 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361192,799,029 - 192,809,558 (+)NCBIMGSCv36mm8
Celera1198,025,782 - 198,036,491 (+)NCBICelera
Cytogenetic Map1H6NCBI
cM Map196.28NCBI
Batf3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049558152,846 - 11,035 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049558152,852 - 11,035 (+)NCBIChiLan1.0ChiLan1.0
BATF3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2136,699,816 - 36,714,928 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1136,664,211 - 36,679,405 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01188,256,087 - 188,271,196 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11193,116,320 - 193,131,306 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1193,116,694 - 193,131,228 (-)Ensemblpanpan1.1panPan2
BATF3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1710,843,859 - 10,854,269 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl710,843,850 - 10,857,847 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha710,418,597 - 10,431,359 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0710,549,439 - 10,562,211 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl710,549,430 - 10,563,388 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1710,472,213 - 10,484,950 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0710,573,492 - 10,586,259 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0710,697,314 - 10,710,068 (-)NCBIUU_Cfam_GSD_1.0
Batf3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934463,596,737 - 63,610,039 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936557837,001 - 850,320 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936557837,023 - 850,316 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
BATF3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl9130,699,196 - 130,712,358 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.19130,699,092 - 130,711,719 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.29143,780,730 - 143,806,814 (-)NCBISscrofa10.2Sscrofa10.2susScr3
BATF3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12516,832,733 - 16,848,835 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2516,834,957 - 16,848,510 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605517,331,273 - 17,345,957 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Batf3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462477118,102,722 - 18,112,640 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Batf3
40 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:71
Count of miRNA genes:67
Interacting mature miRNAs:70
Transcripts:ENSRNOT00000004962
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
12879475Bp400Blood pressure QTL 400arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1361825626106807694Rat
2293702Bss34Bone structure and strength QTL 344.610.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1365103704106807694Rat
2293687Bss26Bone structure and strength QTL 264.60.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1365103704106807694Rat
4889606Gluco63Glucose level QTL 632.860.003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1380753256106807694Rat


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 1 1 12 2 2
Low 2 42 52 39 7 39 7 10 38 28 38 9 7
Below cutoff 1 4 2 2 1 1 29 7 1 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000004962   ⟹   ENSRNOP00000004962
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl13102,689,657 - 102,701,139 (+)Ensembl
Rnor_6.0 Ensembl13109,713,489 - 109,724,863 (+)Ensembl
RefSeq Acc Id: NM_021865   ⟹   NP_068637
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr813105,220,782 - 105,232,365 (+)NCBI
mRatBN7.213102,689,657 - 102,701,241 (+)NCBI
Rnor_6.013109,713,489 - 109,724,865 (+)NCBI
Rnor_5.013114,308,705 - 114,320,081 (+)NCBI
RGSC_v3.413107,128,770 - 107,140,194 (+)RGD
Celera13102,155,014 - 102,166,267 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_068637 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAB49921 (Get FASTA)   NCBI Sequence Viewer  
  EDL94992 (Get FASTA)   NCBI Sequence Viewer  
  EDL94993 (Get FASTA)   NCBI Sequence Viewer  
  EDL94994 (Get FASTA)   NCBI Sequence Viewer  
  EDL94995 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000004962.5
GenBank Protein P97876 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: NP_068637   ⟸   NM_021865
- UniProtKB: P97876 (UniProtKB/Swiss-Prot),   A6JGY7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000004962   ⟸   ENSRNOT00000004962
Protein Domains
bZIP

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P97876-F1-model_v2 AlphaFold P97876 1-133 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:620501 AgrOrtholog
BioCyc Gene G2FUF-16864 BioCyc
Ensembl Genes ENSRNOG00000003716 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000004962.5 UniProtKB/TrEMBL
Gene3D-CATH 1.20.5.170 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro AP-1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  bZIP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  bZIP_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:60462 UniProtKB/Swiss-Prot
NCBI Gene 60462 ENTREZGENE
PANTHER PTHR23351 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR23351:SF13 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam bZIP_1 UniProtKB/TrEMBL
  bZIP_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Batf3 PhenoGen
PRINTS LEUZIPPRFOS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE BZIP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  BZIP_BASIC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000003716 RatGTEx
SMART BRLZ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF57959 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A6JGY7 ENTREZGENE, UniProtKB/TrEMBL
  BATF3_RAT UniProtKB/Swiss-Prot
  G3V6G9_RAT UniProtKB/TrEMBL
  P97876 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-01 Batf3  basic leucine zipper ATF-like transcription factor 3  Batf3  basic leucine zipper transcription factor, ATF-like 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-22 Batf3  basic leucine zipper transcription factor, ATF-like 3  Jdp1  Jun dimerization protein 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Jdp1  Jun dimerization protein 1    Jun dimerization protein 1 gene  Name updated 1299863 APPROVED
2002-08-07 Jdp1  Jun dimerization protein 1 gene      Symbol and Name status set to provisional 70820 PROVISIONAL