Prdm4 (PR/SET domain 4) - Rat Genome Database

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Gene: Prdm4 (PR/SET domain 4) Rattus norvegicus
Analyze
Symbol: Prdm4
Name: PR/SET domain 4
RGD ID: 619929
Description: Enables death receptor binding activity. Involved in several processes, including negative regulation of cell growth; regulation of neural precursor cell proliferation; and regulation of stem cell differentiation. Predicted to be located in cytoplasm. Predicted to be part of histone methyltransferase complex. Predicted to be active in nucleus. Orthologous to human PRDM4 (PR/SET domain 4); PARTICIPATES IN neurotrophic factor signaling pathway; INTERACTS WITH (+)-schisandrin B; 1-naphthyl isothiocyanate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: PR domain 4; PR domain containing 4; PR domain zinc finger protein 4; PR domain-containing protein 4; SC-1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8719,841,560 - 19,868,224 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl719,841,743 - 19,869,313 (+)EnsemblGRCr8
mRatBN7.2717,953,832 - 17,980,489 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl717,954,019 - 17,980,489 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx719,920,808 - 19,941,597 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0722,084,199 - 22,103,966 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0721,860,454 - 21,881,239 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0723,959,932 - 23,986,535 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl723,960,378 - 23,985,525 (+)Ensemblrn6Rnor6.0
Rnor_5.0724,109,460 - 24,136,615 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4720,096,859 - 20,117,628 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera715,190,862 - 15,211,498 (+)NCBICelera
RGSC_v3.1720,110,929 - 20,131,701 (+)NCBI
Cytogenetic Map7q13NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytoplasm  (ISO)
cytosol  (TAS)
histone methyltransferase complex  (ISO)
nucleoplasm  (IEA,ISO,TAS)
nucleus  (IBA,IEA,ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Identification of a zinc finger protein whose subcellular distribution is regulated by serum and nerve growth factor. Chittka A and Chao MV, Proc Natl Acad Sci U S A 1999 Sep 14;96(19):10705-10.
2. Transcription factor positive regulatory domain 4 (PRDM4) recruits protein arginine methyltransferase 5 (PRMT5) to mediate histone arginine methylation and control neural stem cell proliferation and differentiation. Chittka A, etal., J Biol Chem. 2012 Dec 14;287(51):42995-3006. doi: 10.1074/jbc.M112.392746. Epub 2012 Oct 9.
3. 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.
4. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
5. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
6. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
7. GOA pipeline RGD automated data pipeline
8. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
9. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:15051733   PMID:23918801   PMID:27125459  


Genomics

Comparative Map Data
Prdm4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8719,841,560 - 19,868,224 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl719,841,743 - 19,869,313 (+)EnsemblGRCr8
mRatBN7.2717,953,832 - 17,980,489 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl717,954,019 - 17,980,489 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx719,920,808 - 19,941,597 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0722,084,199 - 22,103,966 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0721,860,454 - 21,881,239 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0723,959,932 - 23,986,535 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl723,960,378 - 23,985,525 (+)Ensemblrn6Rnor6.0
Rnor_5.0724,109,460 - 24,136,615 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4720,096,859 - 20,117,628 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera715,190,862 - 15,211,498 (+)NCBICelera
RGSC_v3.1720,110,929 - 20,131,701 (+)NCBI
Cytogenetic Map7q13NCBI
PRDM4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3812107,732,871 - 107,761,137 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl12107,732,867 - 107,761,327 (-)Ensemblhg38GRCh38
GRCh3712108,126,648 - 108,154,914 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3612106,650,773 - 106,679,044 (-)NCBIBuild 36Build 36hg18NCBI36
Build 3412106,629,110 - 106,657,381NCBI
Celera12107,792,201 - 107,820,465 (-)NCBICelera
Cytogenetic Map12q23.3NCBI
HuRef12105,186,879 - 105,215,475 (-)NCBIHuRef
CHM1_112108,092,594 - 108,120,863 (-)NCBICHM1_1
T2T-CHM13v2.012107,696,363 - 107,724,788 (-)NCBIT2T-CHM13v2.0
Prdm4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391085,727,828 - 85,752,958 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1085,727,830 - 85,753,006 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381085,891,964 - 85,917,152 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1085,891,966 - 85,917,142 (-)Ensemblmm10GRCm38
MGSCv371085,354,711 - 85,379,690 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361085,321,765 - 85,346,744 (-)NCBIMGSCv36mm8
Celera1087,866,535 - 87,891,563 (-)NCBICelera
Cytogenetic Map10C1NCBI
cM Map1041.75NCBI
Prdm4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540541,336,199 - 41,353,261 (-)Ensembl
ChiLan1.0NW_00495540541,335,019 - 41,354,625 (-)NCBIChiLan1.0ChiLan1.0
PRDM4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v210115,791,547 - 115,819,845 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan112115,787,944 - 115,816,241 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v012105,303,009 - 105,331,305 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.112108,699,444 - 108,727,444 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl12108,699,444 - 108,727,304 (-)EnsemblpanPan2panpan1.1
PRDM4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11031,071,998 - 31,100,008 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1031,072,297 - 31,098,636 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1031,056,699 - 31,084,641 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01031,916,430 - 31,944,338 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1031,916,780 - 31,944,338 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11031,655,923 - 31,683,803 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01031,945,006 - 31,972,913 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01032,131,601 - 32,159,592 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Prdm4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494514,381,658 - 14,407,064 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364927,396,561 - 7,417,482 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049364927,392,072 - 7,417,478 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PRDM4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl512,638,514 - 12,668,886 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1512,638,335 - 12,668,890 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2512,424,617 - 12,455,111 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PRDM4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.111102,952,123 - 102,980,500 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl11102,953,480 - 102,980,173 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_023666037142,093,057 - 142,121,392 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Prdm4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247502,076,466 - 2,097,766 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247502,077,130 - 2,106,331 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Prdm4
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11162,692,854 - 162,718,446 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Prdm4
355 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:41
Count of miRNA genes:37
Interacting mature miRNAs:40
Transcripts:ENSRNOT00000006886
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61410Bw19Body weight QTL 196.20.001body mass (VT:0001259)body weight (CMO:0000012)7166965846669658Rat
1300176Hrtrt10Heart rate QTL 103.19heart pumping trait (VT:2000009)heart rate (CMO:0000002)7123748937Rat
9590102Sffal5Serum free fatty acids level QTL 58.620.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)7721609752216097Rat
1578652Bmd15Bone mineral density QTL 155.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)71051708662346019Rat
1643004Pain2Pain QTL 21mechanical nociception trait (VT:0002734)self mutilation severity score (CMO:0002145)71011291699900612Rat
2290372Gluco33Glucose level QTL 332.71blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)7131777942Rat
1300149Cm6Cardiac mass QTL 64.09heart mass (VT:0007028)heart left ventricle weight to body weight ratio (CMO:0000530)71104117804Rat
631503Bp102Blood pressure QTL 1021.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7170952746709527Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)71509236116977875Rat
9590142Scort5Serum corticosterone level QTL 524.40.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)7132612984Rat
1582260Bw72Body weight QTL 723.20.0043body mass (VT:0001259)body weight (CMO:0000012)7139960528Rat
1582261Bw69Body weight QTL 693.20.0048body mass (VT:0001259)body weight (CMO:0000012)7139960528Rat
1582262Bw75Body weight QTL 7530.0038body mass (VT:0001259)body weight (CMO:0000012)7139960528Rat
2298547Neuinf5Neuroinflammation QTL 53.7nervous system integrity trait (VT:0010566)spinal cord Cd74 protein level (CMO:0002131)71011291660150541Rat
10059592Kidm45Kidney mass QTL 453.950.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)7946087754460877Rat
2298550Neuinf6Neuroinflammation QTL 63.3nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)7129716167Rat
1300138Hrtrt9Heart rate QTL 94.72heart pumping trait (VT:2000009)heart rate (CMO:0000002)71049882055498820Rat
738033Anxrr6Anxiety related response QTL 64.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)71746044762460447Rat
724560Plsm3Polydactyly-luxate syndrome (PLS) morphotypes QTL 30.0003tibia length (VT:0004357)tibia length (CMO:0000450)7134650782Rat
7411566Bw136Body weight QTL 13610.40.001body mass (VT:0001259)body weight gain (CMO:0000420)7132612984Rat


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
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 163 91 90 59 92 59 6 356 192 11 142 81 92 31 17 17

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001439683 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001439685 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_133312 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006241160 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006241161 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008765213 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039078328 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039078330 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039078331 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063262939 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063262940 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC112739 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC136584 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF176023 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473960 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000007 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000006886   ⟹   ENSRNOP00000006886
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl719,841,743 - 19,869,313 (+)Ensembl
mRatBN7.2 Ensembl717,954,019 - 17,980,489 (+)Ensembl
Rnor_6.0 Ensembl723,960,378 - 23,985,525 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000100599   ⟹   ENSRNOP00000090471
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl717,954,090 - 17,964,535 (+)Ensembl
RefSeq Acc Id: NM_133312   ⟹   NP_579846
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8719,846,401 - 19,867,174 (+)NCBI
mRatBN7.2717,958,666 - 17,979,439 (+)NCBI
Rnor_6.0723,964,716 - 23,985,485 (+)NCBI
Rnor_5.0724,109,460 - 24,136,615 (+)NCBI
RGSC_v3.4720,096,859 - 20,117,628 (+)RGD
Celera715,190,862 - 15,211,498 (+)RGD
Sequence:
RefSeq Acc Id: XM_006241160   ⟹   XP_006241222
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8719,841,620 - 19,868,224 (+)NCBI
mRatBN7.2717,953,886 - 17,980,489 (+)NCBI
Rnor_6.0723,959,935 - 23,986,535 (+)NCBI
Rnor_5.0724,109,460 - 24,136,615 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006241161   ⟹   XP_006241223
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8719,841,610 - 19,868,224 (+)NCBI
mRatBN7.2717,953,886 - 17,980,489 (+)NCBI
Rnor_6.0723,959,935 - 23,985,485 (+)NCBI
Rnor_5.0724,109,460 - 24,136,615 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039078328   ⟹   XP_038934256
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8719,841,566 - 19,868,224 (+)NCBI
mRatBN7.2717,953,832 - 17,980,489 (+)NCBI
RefSeq Acc Id: XM_039078330   ⟹   XP_038934258
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8719,841,620 - 19,857,805 (+)NCBI
mRatBN7.2717,953,886 - 17,970,070 (+)NCBI
RefSeq Acc Id: XM_039078331   ⟹   XP_038934259
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8719,841,620 - 19,857,805 (+)NCBI
mRatBN7.2717,953,886 - 17,970,070 (+)NCBI
RefSeq Acc Id: XM_063262939   ⟹   XP_063119009
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8719,841,560 - 19,868,224 (+)NCBI
RefSeq Acc Id: XM_063262940   ⟹   XP_063119010
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8719,841,620 - 19,860,361 (+)NCBI
RefSeq Acc Id: NP_579846   ⟸   NM_133312
- UniProtKB: Q9QZP2 (UniProtKB/Swiss-Prot),   A6IFD2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006241222   ⟸   XM_006241160
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006241223   ⟸   XM_006241161
- Peptide Label: isoform X2
- Sequence:
Ensembl Acc Id: ENSRNOP00000006886   ⟸   ENSRNOT00000006886
RefSeq Acc Id: XP_038934256   ⟸   XM_039078328
- Peptide Label: isoform X1
- UniProtKB: Q9QZP2 (UniProtKB/Swiss-Prot),   F1LPR7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038934258   ⟸   XM_039078330
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038934259   ⟸   XM_039078331
- Peptide Label: isoform X5
- UniProtKB: A0A8I6AA47 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000090471   ⟸   ENSRNOT00000100599
RefSeq Acc Id: XP_063119009   ⟸   XM_063262939
- Peptide Label: isoform X2
RefSeq Acc Id: XP_063119010   ⟸   XM_063262940
- Peptide Label: isoform X3
Protein Domains
C2H2-type   SET

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9QZP2-F1-model_v2 AlphaFold Q9QZP2 1-798 view protein structure

Transcriptome

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

Promoters
RGD ID:13695094
Promoter ID:EPDNEW_R5619
Type:single initiation site
Name:Prdm4_1
Description:PR/SET domain 4
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_6.0723,960,443 - 23,960,503EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:619929 AgrOrtholog
BioCyc Gene G2FUF-34635 BioCyc
Ensembl Genes ENSRNOG00000004962 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000006886 ENTREZGENE
Gene3D-CATH 2.170.270.10 UniProtKB/Swiss-Prot
  Classic Zinc Finger UniProtKB/Swiss-Prot
InterPro PRDM4 UniProtKB/Swiss-Prot
  PRDM4_PR/SET UniProtKB/Swiss-Prot
  PRDM4_Znf_knuckle UniProtKB/Swiss-Prot
  SET_dom UniProtKB/Swiss-Prot
  SET_dom_sf UniProtKB/Swiss-Prot
  Zinc_finger UniProtKB/Swiss-Prot
  Znf_C2H2_sf UniProtKB/Swiss-Prot
  Znf_C2H2_type UniProtKB/Swiss-Prot
KEGG Report rno:170820 UniProtKB/Swiss-Prot
NCBI Gene 170820 ENTREZGENE
PANTHER PR DOMAIN ZINC FINGER PROTEIN UniProtKB/Swiss-Prot
  PR DOMAIN ZINC FINGER PROTEIN 4 UniProtKB/Swiss-Prot
Pfam PRDM2_PR UniProtKB/Swiss-Prot
  zf-C2H2 UniProtKB/Swiss-Prot
  zf_PR_Knuckle UniProtKB/Swiss-Prot
PhenoGen Prdm4 PhenoGen
PIRSF PRDM4 UniProtKB/Swiss-Prot
PROSITE SET UniProtKB/Swiss-Prot
  ZINC_FINGER_C2H2_1 UniProtKB/Swiss-Prot
  ZINC_FINGER_C2H2_2 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000004962 RatGTEx
SMART ZnF_C2H2 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF57667 UniProtKB/Swiss-Prot
UniProt A0A8I6AA47 ENTREZGENE
  A6IFD2 ENTREZGENE, UniProtKB/TrEMBL
  A6IFD3_RAT UniProtKB/TrEMBL
  F1LPR7 ENTREZGENE, UniProtKB/TrEMBL
  PRDM4_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-07-27 Prdm4  PR/SET domain 4  Prdm4  PR domain 4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-02-03 Prdm4  PR domain 4  Prdm4  PR domain containing 4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-02-26 Prdm4  PR domain containing 4      Symbol and Name status set to approved 625702 APPROVED
2002-08-07 Prdm4  PR domain containing 4      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization change in subcellular localization from cytoplasm to the nucleus is associated with p75 neurotrophin receptor binding as well as with serum starvation 633619