Zfp472 (zinc finger protein 472) - Rat Genome Database

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Gene: Zfp472 (zinc finger protein 472) Rattus norvegicus
Analyze
Symbol: Zfp472
Name: zinc finger protein 472
RGD ID: 727944
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 ZNF788P (zinc finger family member 788, pseudogene); INTERACTS WITH 1,2-dichloroethane (ortholog); 1,2-dimethylhydrazine (ortholog); 2,3,7,8-tetrachlorodibenzodioxine (ortholog).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: KRAB box containing zinc finger protein; KRIM-1; Krim1
RGD Orthologs
Human
Mouse
Bonobo
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8712,725,127 - 12,733,394 (+)NCBIGRCr8
mRatBN7.2712,074,623 - 12,082,890 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl712,074,603 - 12,082,892 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx714,875,980 - 14,884,323 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0716,753,374 - 16,761,717 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0714,633,073 - 14,641,304 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0715,242,149 - 15,250,418 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl715,242,227 - 15,250,411 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0715,400,840 - 15,409,294 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4713,653,039 - 13,661,308 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1713,653,038 - 13,661,307 (+)NCBI
Celera710,170,295 - 10,178,562 (+)NCBICelera
Cytogenetic Map7q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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. Identification of a novel Kruppel-associated box domain protein, Krim-1, that interacts with c-Myc and inhibits its oncogenic activity. Hennemann H, etal., J Biol Chem 2003 Aug 1;278(31):28799-811. Epub 2003 May 13.
3. NCBI rat LocusLink and RefSeq merged data October 15, 2003 NCBI rat LocusLink and RefSeq merged data October 15, 2003
4. GOA pipeline RGD automated data pipeline
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:16791210  


Genomics

Comparative Map Data
Zfp472
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8712,725,127 - 12,733,394 (+)NCBIGRCr8
mRatBN7.2712,074,623 - 12,082,890 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl712,074,603 - 12,082,892 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx714,875,980 - 14,884,323 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0716,753,374 - 16,761,717 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0714,633,073 - 14,641,304 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0715,242,149 - 15,250,418 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl715,242,227 - 15,250,411 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0715,400,840 - 15,409,294 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4713,653,039 - 13,661,308 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1713,653,038 - 13,661,307 (+)NCBI
Celera710,170,295 - 10,178,562 (+)NCBICelera
Cytogenetic Map7q11NCBI
ZNF788P
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381912,092,297 - 12,114,753 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1912,092,468 - 12,113,048 (+)EnsemblGRCh38hg38GRCh38
GRCh371912,203,112 - 12,225,568 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361912,068,239 - 12,086,666 (+)NCBINCBI36Build 36hg18NCBI36
Celera1912,097,465 - 12,119,880 (+)NCBICelera
Cytogenetic Map19p13.2NCBI
HuRef1911,778,249 - 11,800,665 (+)NCBIHuRef
CHM1_11912,202,913 - 12,225,334 (+)NCBICHM1_1
T2T-CHM13v2.01912,220,540 - 12,242,998 (+)NCBIT2T-CHM13v2.0
Zfp119a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391756,171,892 - 56,185,953 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1756,171,892 - 56,185,930 (-)EnsemblGRCm39 Ensembl
GRCm381755,864,886 - 55,879,457 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1755,864,892 - 55,878,930 (-)EnsemblGRCm38mm10GRCm38
MGSCv371756,004,192 - 56,018,195 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361755,458,027 - 55,472,088 (-)NCBIMGSCv36mm8
Celera1759,283,514 - 59,297,517 (-)NCBICelera
Cytogenetic Map17DNCBI
cM Map1729.04NCBI
LOC103785280
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22016,996,252 - 17,039,552 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11915,996,683 - 16,039,825 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01911,656,545 - 11,663,838 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11912,409,721 - 12,433,780 (+)NCBIpanpan1.1PanPan1.1panPan2

Variants

.
Variants in Zfp472
52 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:331
Count of miRNA genes:209
Interacting mature miRNAs:250
Transcripts:ENSRNOT00000006044
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
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
10755438Coatc9Coat color QTL 90coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7352928048529280Rat
9590102Sffal5Serum free fatty acids level QTL 58.620.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)7532901950329019Rat
10755440Coatc10Coat color QTL 100coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7749649952496499Rat
10059592Kidm45Kidney mass QTL 453.950.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)7757398552573985Rat
2298547Neuinf5Neuroinflammation QTL 53.7nervous system integrity trait (VT:0010566)spinal cord Cd74 protein level (CMO:0002131)7946224658265113Rat
1643004Pain2Pain QTL 21mechanical nociception trait (VT:0002734)self mutilation severity score (CMO:0002145)7946224698011544Rat
1578652Bmd15Bone mineral density QTL 155.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)7986646760460686Rat

Markers in Region
BE101327  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2712,075,231 - 12,075,443 (+)MAPPERmRatBN7.2
Rnor_6.0715,242,758 - 15,242,969NCBIRnor6.0
Rnor_5.0715,401,449 - 15,401,660UniSTSRnor5.0
RGSC_v3.4713,653,648 - 13,653,859UniSTSRGSC3.4
Celera710,170,904 - 10,171,115UniSTS
RH 3.4 Map768.2UniSTS
Cytogenetic Map7q11UniSTS


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 2 14 6 19 6 36 17 30 10
Low 1 43 43 35 35 8 11 38 18 11 1 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000006044   ⟹   ENSRNOP00000006044
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl712,074,603 - 12,082,887 (+)Ensembl
Rnor_6.0 Ensembl715,247,681 - 15,250,411 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000084634   ⟹   ENSRNOP00000074976
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl712,074,634 - 12,082,892 (+)Ensembl
Rnor_6.0 Ensembl715,242,227 - 15,249,987 (+)Ensembl
RefSeq Acc Id: NM_182823   ⟹   NP_877975
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8712,725,127 - 12,733,394 (+)NCBI
mRatBN7.2712,074,623 - 12,082,890 (+)NCBI
Rnor_6.0715,242,149 - 15,250,418 (+)NCBI
Rnor_5.0715,400,840 - 15,409,294 (+)NCBI
RGSC_v3.4713,653,039 - 13,661,308 (+)RGD
Celera710,170,295 - 10,178,562 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_877975 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAP34296 (Get FASTA)   NCBI Sequence Viewer  
  EDL89495 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000006044
  ENSRNOP00000006044.6
  ENSRNOP00000074976.2
Reference Protein Sequences
RefSeq Acc Id: NP_877975   ⟸   NM_182823
- UniProtKB: Q7TPB3 (UniProtKB/TrEMBL),   F7EM21 (UniProtKB/TrEMBL),   A0A9K3Y7E5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000074976   ⟸   ENSRNOT00000084634
RefSeq Acc Id: ENSRNOP00000006044   ⟸   ENSRNOT00000006044
Protein Domains
C2H2-type   KRAB

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q7TPB3-F1-model_v2 AlphaFold Q7TPB3 1-533 view protein structure

Transcriptome

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

Promoters
RGD ID:13695076
Promoter ID:EPDNEW_R5601
Type:initiation region
Name:Zfp472_1
Description:zinc finger protein 472
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_6.0715,242,131 - 15,242,191EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:727944 AgrOrtholog
BioCyc Gene G2FUF-34795 BioCyc
Ensembl Genes ENSRNOG00000004572 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000006044 ENTREZGENE
  ENSRNOT00000006044.7 UniProtKB/TrEMBL
  ENSRNOT00000084634.2 UniProtKB/TrEMBL
Gene3D-CATH 6.10.140.140 UniProtKB/TrEMBL
  Classic Zinc Finger UniProtKB/TrEMBL
InterPro KRAB_dom_sf UniProtKB/TrEMBL
  Krueppel-associated_box UniProtKB/TrEMBL
  Znf_C2H2/integrase_DNA-bd UniProtKB/TrEMBL
  Znf_C2H2_sf UniProtKB/TrEMBL
KEGG Report rno:314587 UniProtKB/TrEMBL
NCBI Gene 314587 ENTREZGENE
PANTHER RCG31665-RELATED UniProtKB/TrEMBL
  REDUCED EXPRESSION 2-RELATED UniProtKB/TrEMBL
  ZINC FINGER AND SCAN DOMAIN-CONTAINING UniProtKB/TrEMBL
  ZINC FINGER PROTEIN 200 UniProtKB/TrEMBL
Pfam KRAB UniProtKB/TrEMBL
  zf-C2H2 UniProtKB/TrEMBL
  zf-H2C2_2 UniProtKB/TrEMBL
PhenoGen Zfp472 PhenoGen
PROSITE KRAB UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_1 UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000004572 RatGTEx
SMART KRAB UniProtKB/TrEMBL
  ZnF_C2H2 UniProtKB/TrEMBL
Superfamily-SCOP Krueppel-associated_box UniProtKB/TrEMBL
  SSF57667 UniProtKB/TrEMBL
UniProt A0A0G2K9F4_RAT UniProtKB/TrEMBL
  A0A9K3Y7E5 ENTREZGENE, UniProtKB/TrEMBL
  F7EM21 ENTREZGENE
  Q7TPB3 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary F7EM21 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-04 Zfp472  zinc finger protein 472  Krim1  KRAB box containing zinc finger protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-09-30 Krim1        Symbol and Name status set to provisional 70820 PROVISIONAL