Ikzf4 (IKAROS family zinc finger 4) - Rat Genome Database

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Gene: Ikzf4 (IKAROS family zinc finger 4) Rattus norvegicus
Analyze
Symbol: Ikzf4
Name: IKAROS family zinc finger 4
RGD ID: 2319157
Description: Predicted to enable several functions, including bHLH transcription factor binding activity; identical protein binding activity; and zinc ion binding activity. Predicted to be involved in protein homooligomerization and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within negative regulation of DNA-templated transcription and positive regulation of transcription by RNA polymerase II. Predicted to be located in nuclear body. Predicted to be part of protein-containing complex. Orthologous to human IKZF4 (IKAROS family zinc finger 4); INTERACTS WITH 1-naphthyl isothiocyanate; 6-propyl-2-thiouracil; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC100361923; zinc finger protein Eos; zinc finger protein, subfamily 1A, 4
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
GRCr871,643,379 - 1,687,524 (-)NCBIGRCr8
mRatBN7.271,063,283 - 1,102,940 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl71,056,890 - 1,084,341 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.073,061,422 - 3,098,142 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl73,061,469 - 3,074,359 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.073,033,479 - 3,047,739 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.471,928,510 - 1,948,712 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera7936,994 - 972,554 (-)NCBICelera
Cytogenetic Map7q11NCBI
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

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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10218586   PMID:12444977   PMID:15491138   PMID:22638570  


Genomics

Comparative Map Data
Ikzf4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr871,643,379 - 1,687,524 (-)NCBIGRCr8
mRatBN7.271,063,283 - 1,102,940 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl71,056,890 - 1,084,341 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.073,061,422 - 3,098,142 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl73,061,469 - 3,074,359 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.073,033,479 - 3,047,739 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.471,928,510 - 1,948,712 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera7936,994 - 972,554 (-)NCBICelera
Cytogenetic Map7q11NCBI
IKZF4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381256,007,504 - 56,038,435 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1256,007,659 - 56,038,435 (+)EnsemblGRCh38hg38GRCh38
GRCh371256,401,288 - 56,432,219 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361254,700,956 - 54,718,486 (+)NCBINCBI36Build 36hg18NCBI36
Build 341254,704,790 - 54,717,887NCBI
Celera1256,067,374 - 56,084,906 (+)NCBICelera
Cytogenetic Map12q13.2NCBI
HuRef1253,453,622 - 53,471,154 (+)NCBIHuRef
CHM1_11256,381,800 - 56,399,323 (+)NCBICHM1_1
T2T-CHM13v2.01255,974,567 - 56,005,499 (+)NCBIT2T-CHM13v2.0
Ikzf4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3910128,466,708 - 128,505,668 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl10128,466,712 - 128,505,227 (-)EnsemblGRCm39 Ensembl
GRCm3810128,630,839 - 128,669,671 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl10128,630,843 - 128,669,358 (-)EnsemblGRCm38mm10GRCm38
MGSCv3710128,069,471 - 128,083,049 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3610128,036,663 - 128,047,597 (-)NCBIMGSCv36mm8
Celera10131,024,505 - 131,038,081 (-)NCBICelera
Cytogenetic Map10D3NCBI
cM Map1077.11NCBI
Ikzf4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554583,614,228 - 3,627,930 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554583,589,865 - 3,627,154 (+)NCBIChiLan1.0ChiLan1.0
IKZF4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21038,292,111 - 38,323,996 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11238,288,346 - 38,319,013 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01232,874,890 - 32,906,053 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11233,124,994 - 33,155,269 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1233,124,994 - 33,155,269 (-)Ensemblpanpan1.1panPan2
IKZF4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.110332,614 - 360,470 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl10342,097 - 357,364 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha10399,003 - 419,315 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.010343,683 - 364,027 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl10352,069 - 365,629 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.110321,685 - 341,936 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.010564,245 - 584,778 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.010688,749 - 709,028 (+)NCBIUU_Cfam_GSD_1.0
Ikzf4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494558,421,214 - 58,453,791 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936646429,833 - 449,021 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936646417,565 - 449,021 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
IKZF4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl521,400,347 - 21,427,647 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1521,399,858 - 21,427,648 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
IKZF4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11151,944,959 - 51,976,652 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1151,959,876 - 51,976,658 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666037194,010,305 - 194,042,391 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ikzf4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462480212,007,506 - 12,023,121 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462480212,008,096 - 12,023,142 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ikzf4
232 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:53
Count of miRNA genes:50
Interacting mature miRNAs:53
Transcripts:ENSRNOT00000019738
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
2298550Neuinf6Neuroinflammation QTL 63.3nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)7127829089Rat
7411566Bw136Body weight QTL 13610.40.001body mass (VT:0001259)body weight gain (CMO:0000420)7131962314Rat
9590142Scort5Serum corticosterone level QTL 524.40.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)7131962314Rat
724560Plsm3Polydactyly-luxate syndrome (PLS) morphotypes QTL 30.0003tibia length (VT:0004357)tibia length (CMO:0000450)7134000259Rat
2317047Wbc4White blood cell count QTL 40.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)7135342956Rat
61410Bw19Body weight QTL 196.20.001body mass (VT:0001259)body weight (CMO:0000012)7144782185Rat
631503Bp102Blood pressure QTL 1021.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7144822433Rat
1300176Hrtrt10Heart rate QTL 103.19heart pumping trait (VT:2000009)heart rate (CMO:0000002)766427026029351Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)7924703115097879Rat

Markers in Region
D12S1632  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.271,078,990 - 1,079,174 (+)MAPPERmRatBN7.2
Rnor_6.073,074,038 - 3,074,221NCBIRnor6.0
Rnor_5.073,047,232 - 3,047,415UniSTSRnor5.0
RGSC_v3.471,948,389 - 1,948,571UniSTSRGSC3.4
Celera7949,124 - 949,307UniSTS


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 41 3
Low 2 30 28 12 16 12 33 35 37 11
Below cutoff 1 13 28 28 3 28 6 9 1 6

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001427287 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_003754258 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006225914 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017595140 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017595141 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017595142 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017595143 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017595144 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603356 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603357 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603358 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603359 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603360 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC098012 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC128207 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000007 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000019738   ⟹   ENSRNOP00000019738
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl71,056,890 - 1,079,907 (-)Ensembl
Rnor_6.0 Ensembl73,061,469 - 3,074,359 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000119994   ⟹   ENSRNOP00000079721
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl71,063,839 - 1,084,341 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000120270   ⟹   ENSRNOP00000097096
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl71,063,839 - 1,079,907 (-)Ensembl
RefSeq Acc Id: NM_001427287   ⟹   NP_001414216
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr871,647,805 - 1,664,002 (-)NCBI
RefSeq Acc Id: XM_017595142   ⟹   XP_017450631
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr871,643,379 - 1,687,524 (-)NCBI
mRatBN7.271,063,283 - 1,102,940 (-)NCBI
Rnor_6.073,061,422 - 3,098,142 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017595144   ⟹   XP_017450633
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr871,643,379 - 1,667,332 (-)NCBI
mRatBN7.271,063,283 - 1,079,349 (-)NCBI
Rnor_6.073,061,422 - 3,074,350 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001414216 (Get FASTA)   NCBI Sequence Viewer  
  XP_017450631 (Get FASTA)   NCBI Sequence Viewer  
  XP_017450633 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000019738.7
  ENSRNOP00000079721.1
  ENSRNOP00000097096.1
Reference Protein Sequences
RefSeq Acc Id: XP_017450631   ⟸   XM_017595142
- Peptide Label: isoform X1
- UniProtKB: A0A8I5ZN67 (UniProtKB/TrEMBL),   A6KSG2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017450633   ⟸   XM_017595144
- Peptide Label: isoform X2
- UniProtKB: A6KSG2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000019738   ⟸   ENSRNOT00000019738
RefSeq Acc Id: ENSRNOP00000097096   ⟸   ENSRNOT00000120270
RefSeq Acc Id: ENSRNOP00000079721   ⟸   ENSRNOT00000119994
RefSeq Acc Id: NP_001414216   ⟸   NM_001427287
- UniProtKB: A0A8I6AS15 (UniProtKB/TrEMBL)
Protein Domains
C2H2-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A636-F1-model_v2 AlphaFold D4A636 1-586 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:2319157 AgrOrtholog
BioCyc Gene G2FUF-35346 BioCyc
Ensembl Genes ENSRNOG00000005535 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000019738.7 UniProtKB/TrEMBL
  ENSRNOT00000119994.1 UniProtKB/TrEMBL
  ENSRNOT00000120270.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.1740.20 UniProtKB/TrEMBL
  Classic Zinc Finger UniProtKB/TrEMBL
InterPro Ribosomal_eS26_CS UniProtKB/TrEMBL
  Ribosomal_S26e UniProtKB/TrEMBL
  Ribosomal_S26e_sf UniProtKB/TrEMBL
  Znf_C2H2/integrase_DNA-bd UniProtKB/TrEMBL
  Znf_C2H2_sf UniProtKB/TrEMBL
KEGG Report rno:100361923 UniProtKB/TrEMBL
NCBI Gene 100361923 ENTREZGENE
PANTHER 40S RIBOSOMAL PROTEIN S26 UniProtKB/TrEMBL
  40S RIBOSOMAL PROTEIN S26-RELATED UniProtKB/TrEMBL
  ZINC FINGER PROTEIN UniProtKB/TrEMBL
  ZINC FINGER PROTEIN EOS UniProtKB/TrEMBL
Pfam Ribosomal_S26e UniProtKB/TrEMBL
  zf-C2H2 UniProtKB/TrEMBL
PhenoGen Ikzf4 PhenoGen
PROSITE RIBOSOMAL_S26E UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_1 UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000005535 RatGTEx
SMART ZnF_C2H2 UniProtKB/TrEMBL
Superfamily-SCOP SSF57667 UniProtKB/TrEMBL
UniProt A0A8I5ZN67 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6AS15 ENTREZGENE, UniProtKB/TrEMBL
  A6KSG1_RAT UniProtKB/TrEMBL
  A6KSG2 ENTREZGENE, UniProtKB/TrEMBL
  D4A636_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-08-24 Ikzf4  IKAROS family zinc finger 4  LOC100361923  zinc finger protein, subfamily 1A, 4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-05-05 LOC100361923  zinc finger protein, subfamily 1A, 4      Symbol and Name status set to provisional 70820 PROVISIONAL