Zfp28 (zinc finger protein 28) - Rat Genome Database

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Gene: Zfp28 (zinc finger protein 28) Rattus norvegicus
Analyze
Symbol: Zfp28
Name: zinc finger protein 28
RGD ID: 7679103
Description: Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be active in nucleus. Orthologous to human ZFP28 (ZFP28 zinc finger protein); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC102548693; Zfp28l; zinc finger protein 28 homolog; zinc finger protein 28-like
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Squirrel
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8176,522,779 - 76,539,837 (-)NCBIGRCr8
mRatBN7.2167,494,862 - 67,510,801 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl167,494,544 - 67,524,881 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.0171,167,198 - 71,183,071 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl171,167,156 - 71,173,216 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0172,573,802 - 72,589,577 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.0172,560,047 - 72,571,855 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera165,240,783 - 65,252,606 (-)NCBICelera
Cytogenetic Map1q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
nucleus  (IBA)

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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Zfp28
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8176,522,779 - 76,539,837 (-)NCBIGRCr8
mRatBN7.2167,494,862 - 67,510,801 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl167,494,544 - 67,524,881 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.0171,167,198 - 71,183,071 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl171,167,156 - 71,173,216 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0172,573,802 - 72,589,577 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.0172,560,047 - 72,571,855 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera165,240,783 - 65,252,606 (-)NCBICelera
Cytogenetic Map1q12NCBI
ZFP28
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381956,536,947 - 56,556,808 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1956,538,948 - 56,556,808 (+)EnsemblGRCh38hg38GRCh38
GRCh371957,050,317 - 57,068,177 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361961,742,129 - 61,759,982 (+)NCBINCBI36Build 36hg18NCBI36
Build 341961,742,128 - 61,759,981NCBI
Celera1954,093,305 - 54,111,158 (+)NCBICelera
Cytogenetic Map19q13.43NCBI
HuRef1953,360,242 - 53,378,097 (+)NCBIHuRef
CHM1_11957,043,911 - 57,061,750 (+)NCBICHM1_1
T2T-CHM13v2.01959,631,381 - 59,651,208 (+)NCBIT2T-CHM13v2.0
Zfp28
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3976,386,317 - 6,399,636 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl76,386,294 - 6,399,914 (+)EnsemblGRCm39 Ensembl
GRCm3876,383,206 - 6,396,637 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl76,383,295 - 6,396,915 (+)EnsemblGRCm38mm10GRCm38
MGSCv3776,336,028 - 6,349,347 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3675,987,329 - 5,999,765 (+)NCBIMGSCv36mm8
Celera76,113,308 - 6,126,626 (+)NCBICelera
Cytogenetic Map7A1NCBI
cM Map73.7NCBI
Zfp28
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955567302,877 - 318,461 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955567306,111 - 321,222 (-)NCBIChiLan1.0ChiLan1.0
ZFP28
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22062,825,817 - 62,842,767 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11964,617,381 - 64,634,730 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01953,563,520 - 53,581,359 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11962,357,387 - 62,375,202 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1962,357,387 - 62,375,202 (+)Ensemblpanpan1.1panPan2
Zfp28
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244093491,179,811 - 1,215,635 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936882281,897 - 297,897 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936882275,907 - 298,874 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ZFP28
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1649,077,948 - 49,094,330 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl649,085,876 - 49,094,496 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660452,090,149 - 2,106,578 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Zfp28
108 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:114
Count of miRNA genes:96
Interacting mature miRNAs:99
Transcripts:ENSRNOT00000020523
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
1331732Srn4Serum renin concentration QTL 44.467renin activity (VT:0005581)plasma renin activity level (CMO:0000116)13523959878430678Rat
2313059Bss55Bone structure and strength QTL 553.20.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143284731118944897Rat
631688Hcas2Hepatocarcinoma susceptibility QTL 230.0001liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)15925874115540829Rat
1578649Bmd8Bone mineral density QTL 84.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)14939317294393172Rat
1358359Sradr1Stress Responsive Adrenal Weight QTL 14.74adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)130882023123479925Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)149393289199050459Rat
4889929Bss87Bone structure and strength QTL 876.7tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)15389511782174945Rat
1331792Rf29Renal function QTL 294.589urine potassium amount (VT:0010539)urine potassium level (CMO:0000128)13523959878430678Rat
2313062Bmd73Bone mineral density QTL 733.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)11148131282174945Rat
8552900Pigfal1Plasma insulin-like growth factor 1 level QTL 17.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)13483685879836858Rat
1578654Bss10Bone structure and strength QTL 104femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)149393172159356837Rat
1554320Bmd1Bone mineral density QTL 112.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)150910886060548Rat
1354643Foco2Food consumption QTL 27.170.0001eating behavior trait (VT:0001431)food intake rate (CMO:0000427)13344984878449848Rat
2302059Pia36Pristane induced arthritis QTL 363.80.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)14333300288333002Rat
2313065Bss67Bone structure and strength QTL 673.10.0001tibia area (VT:1000281)tibia total energy absorbed before break (CMO:0001736)11148131282174945Rat
1300121Hrtrt1Heart rate QTL 13.7heart pumping trait (VT:2000009)heart rate (CMO:0000002)165789093115540829Rat
7421628Bp361Blood pressure QTL 3610.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)166023617118608521Rat
2313069Bss68Bone structure and strength QTL 682.90.0001tibia size trait (VT:0100001)tibia total energy absorbed before break (CMO:0001736)11148131282174945Rat
631495Bp96Blood pressure QTL 964.52arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)122340647102268831Rat
2313075Bss66Bone structure and strength QTL 663.40.0001tibia length (VT:0004357)tibia length (CMO:0000450)11148131282174945Rat
70225Bp58Blood pressure QTL 583.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132356093162846471Rat
2298545Neuinf8Neuroinflammation QTL 84.6nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)157336763151090257Rat
2313072Bss53Bone structure and strength QTL 534.30.0001tibia length (VT:0004357)tibia length (CMO:0000450)143284731118944897Rat
1300167Hrtrt2Heart rate QTL 24.35heart pumping trait (VT:2000009)heart rate (CMO:0000002)11148131275088344Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132737458199368955Rat
2313078Bss54Bone structure and strength QTL 543.50.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)143284731118944897Rat
2313077Bss69Bone structure and strength QTL 693.50.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)11148131282174945Rat
1331778Rf28Renal function QTL 284.66urine potassium amount (VT:0010539)urine potassium excretion rate (CMO:0000761)14580314078430678Rat
2313402Anxrr24Anxiety related response QTL 24aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)148963584144267916Rat
1331785Rf27Renal function QTL 274.643urine sodium amount (VT:0006274)urine sodium level (CMO:0000129)12887978078430678Rat
61342Bp27Blood pressure QTL 273.40.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)15673266898773277Rat
1300172Bp172Blood pressure QTL 1723.56arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)13273727390665040Rat
4889962Bss94Bone structure and strength QTL 943.8tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)14936146582174945Rat
2313094Bss58Bone structure and strength QTL 583.70.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143284731118944897Rat
6903308Scl36Serum cholesterol QTL 3620.0125blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)15386304190532583Rat
2313092Bmd72Bone mineral density QTL 722.50.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)11148131282174945Rat
2300164Bmd44Bone mineral density QTL 445.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)156949932101949932Rat
2313099Bss56Bone structure and strength QTL 562.40.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)143284731118944897Rat
2313098Bmd70Bone mineral density QTL 703.60.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)143284731118944897Rat
2313097Bss70Bone structure and strength QTL 703.50.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)11148131282174945Rat
9589820Insglur3Insulin/glucose ratio QTL 310.750.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)13483685879836858Rat
152025249Scl82Serum cholesterol level QTL 824.77blood cholesterol amount (VT:0000180)15034351099980958Rat
1354599Bw29Body weight QTL 293.460.001body mass (VT:0001259)body weight (CMO:0000012)13344984878449848Rat
4889919Bss86Bone structure and strength QTL 864.1tibia area (VT:1000281)tibia midshaft total cross-sectional area (CMO:0001715)15389511782174945Rat
8552948Pigfal11Plasma insulin-like growth factor 1 level QTL 114.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)13483685879836858Rat
2313051Bss57Bone structure and strength QTL 573.70.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)143284731118944897Rat

Markers in Region
RH134235  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2161,941,454 - 61,941,639 (-)MAPPERmRatBN7.2
Rnor_6.01138,773,240 - 38,773,424NCBIRnor6.0
Rnor_5.0164,187,779 - 64,187,963UniSTSRnor5.0
RGSC_v3.4160,059,788 - 60,059,972UniSTSRGSC3.4
Celera158,044,001 - 58,044,185UniSTS
RH 3.4 Map1702.0UniSTS
Cytogenetic Map1q12UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000020523   ⟹   ENSRNOP00000020523
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl167,494,544 - 67,506,759 (-)Ensembl
Rnor_6.0 Ensembl171,167,156 - 71,173,216 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000035184   ⟹   ENSRNOP00000037545
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl167,510,427 - 67,524,530 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000035217   ⟹   ENSRNOP00000036346
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl167,494,646 - 67,524,881 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000096770   ⟹   ENSRNOP00000097324
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl167,494,544 - 67,506,759 (-)Ensembl
RefSeq Acc Id: NM_001427739   ⟹   NP_001414668
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8176,526,526 - 76,539,753 (-)NCBI
RefSeq Acc Id: XM_006228205   ⟹   XP_006228267
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8176,522,779 - 76,539,836 (-)NCBI
mRatBN7.2167,494,862 - 67,506,633 (-)NCBI
Rnor_6.0171,167,198 - 71,179,021 (-)NCBI
Rnor_5.0172,560,047 - 72,571,855 (-)NCBI
Sequence:
RefSeq Acc Id: XM_063285400   ⟹   XP_063141470
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8176,522,779 - 76,539,837 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001414668 (Get FASTA)   NCBI Sequence Viewer  
  XP_006228267 (Get FASTA)   NCBI Sequence Viewer  
  XP_063141470 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000020523.7
  ENSRNOP00000036346.5
  ENSRNOP00000097324.1
RefSeq Acc Id: XP_006228267   ⟸   XM_006228205
- Peptide Label: isoform X2
- UniProtKB: D3ZVD4 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000020523   ⟸   ENSRNOT00000020523
Ensembl Acc Id: ENSRNOP00000036346   ⟸   ENSRNOT00000035217
Ensembl Acc Id: ENSRNOP00000097324   ⟸   ENSRNOT00000096770
Ensembl Acc Id: ENSRNOP00000037545   ⟸   ENSRNOT00000035184
RefSeq Acc Id: XP_063141470   ⟸   XM_063285400
- Peptide Label: isoform X1
RefSeq Acc Id: NP_001414668   ⟸   NM_001427739
Protein Domains
C2H2-type   KRAB

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZVD4-F1-model_v2 AlphaFold D3ZVD4 1-721 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:7679103 AgrOrtholog
BioCyc Gene G2FUF-60928 BioCyc
Ensembl Genes ENSRNOG00000042777 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000020523.8 UniProtKB/TrEMBL
  ENSRNOT00000035217.5 UniProtKB/TrEMBL
  ENSRNOT00000096770.1 UniProtKB/TrEMBL
Gene3D-CATH 6.10.140.140 UniProtKB/TrEMBL
  Classic Zinc Finger UniProtKB/TrEMBL
InterPro C2H2-ZF_domain UniProtKB/TrEMBL
  KRAB_dom_sf UniProtKB/TrEMBL
  Krueppel-associated_box UniProtKB/TrEMBL
  Znf_C2H2-type UniProtKB/TrEMBL
  Znf_C2H2/integrase_DNA-bd UniProtKB/TrEMBL
  Znf_C2H2_sf UniProtKB/TrEMBL
KEGG Report rno:102548693 UniProtKB/TrEMBL
NCBI Gene LOC102548693 ENTREZGENE
PANTHER FINGER PUTATIVE TRANSCRIPTION FACTOR FAMILY-RELATED UniProtKB/TrEMBL
  GENE 10130-RELATED UniProtKB/TrEMBL
  SI:DKEY-15H8.11 PROTEIN-RELATED UniProtKB/TrEMBL
  ZINC FINGER AND BTB DOMAIN-CONTAINING PROTEIN 17 UniProtKB/TrEMBL
  ZINC FINGER PROTEIN 142 UniProtKB/TrEMBL
  ZNF44 PROTEIN UniProtKB/TrEMBL
Pfam KRAB UniProtKB/TrEMBL
  zf-C2H2 UniProtKB/TrEMBL
  zf-C2H2_6 UniProtKB/TrEMBL
PhenoGen Zfp28 PhenoGen
PROSITE KRAB UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_1 UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000042777 RatGTEx
SMART KRAB UniProtKB/TrEMBL
  ZnF_C2H2 UniProtKB/TrEMBL
Superfamily-SCOP SSF109640 UniProtKB/TrEMBL
  SSF57667 UniProtKB/TrEMBL
UniProt A0A8I6ASG2_RAT UniProtKB/TrEMBL
  D3ZB41_RAT UniProtKB/TrEMBL
  D3ZVD4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2014-01-02 Zfp28l  zinc finger protein 28-like  LOC102548693  zinc finger protein 28-like  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2014-01-02 Zfp28  zinc finger protein 28  Zfp28l  zinc finger protein 28-like  Name and Symbol changed 629549 APPROVED
2013-12-18 LOC102548693  zinc finger protein 28-like      Symbol and Name status set to provisional 70820 PROVISIONAL