Prdm5 (PR/SET domain 5) - Rat Genome Database

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Gene: Prdm5 (PR/SET domain 5) Rattus norvegicus
Analyze
Symbol: Prdm5
Name: PR/SET domain 5
RGD ID: 1588700
Description: Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific; DNA-binding transcription factor binding activity; and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in mitotic cell cycle; regulation of DNA-templated transcription; and regulation of extracellular matrix organization. Predicted to act upstream of or within cellular response to leukemia inhibitory factor; negative regulation of transcription by RNA polymerase II; and positive regulation of transcription by RNA polymerase II. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in brittle cornea syndrome 2. Orthologous to human PRDM5 (PR/SET domain 5); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC689788; PR domain 5; PR domain containing 5; PR domain zinc finger protein 5; similar to PR domain containing 5
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
GRCr8496,405,492 - 96,567,647 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl496,405,493 - 96,567,647 (+)EnsemblGRCr8
mRatBN7.2495,075,736 - 95,237,921 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl495,075,768 - 95,238,301 (+)EnsemblmRatBN7.2
Rnor_6.0496,659,062 - 96,810,816 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl496,659,084 - 96,812,263 (+)Ensemblrn6Rnor6.0
Rnor_5.04161,443,531 - 161,604,796 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4495,448,787 - 95,620,031 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera489,805,717 - 89,965,943 (+)NCBICelera
Cytogenetic Map4q31NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
nuclear body  (ISO)
nucleolus  (ISO)
nucleoplasm  (ISO)
nucleus  (IBA,IEA,ISO)

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. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
3. GOA pipeline RGD automated data pipeline
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:17636019   PMID:20439489   PMID:27074744   PMID:27830494   PMID:29995562   PMID:30146926   PMID:35253153  


Genomics

Comparative Map Data
Prdm5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8496,405,492 - 96,567,647 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl496,405,493 - 96,567,647 (+)EnsemblGRCr8
mRatBN7.2495,075,736 - 95,237,921 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl495,075,768 - 95,238,301 (+)EnsemblmRatBN7.2
Rnor_6.0496,659,062 - 96,810,816 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl496,659,084 - 96,812,263 (+)Ensemblrn6Rnor6.0
Rnor_5.04161,443,531 - 161,604,796 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4495,448,787 - 95,620,031 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera489,805,717 - 89,965,943 (+)NCBICelera
Cytogenetic Map4q31NCBI
PRDM5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh384120,684,291 - 120,922,726 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl4120,684,919 - 120,923,089 (-)Ensemblhg38GRCh38
GRCh374121,613,070 - 121,843,881 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 364121,835,379 - 122,063,463 (-)NCBIBuild 36Build 36hg18NCBI36
Build 344121,973,534 - 122,201,618NCBI
Celera4119,000,898 - 119,228,989 (-)NCBICelera
Cytogenetic Map4q27NCBI
HuRef4117,343,051 - 117,571,126 (-)NCBIHuRef
CHM1_14121,592,306 - 121,820,496 (-)NCBICHM1_1
T2T-CHM13v2.04123,965,980 - 124,226,930 (-)NCBIT2T-CHM13v2.0
Prdm5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39665,754,640 - 65,914,606 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl665,755,972 - 65,913,994 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38665,777,656 - 65,937,622 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl665,778,988 - 65,937,010 (+)Ensemblmm10GRCm38
MGSCv37665,728,956 - 65,886,371 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36665,708,617 - 65,865,951 (+)NCBIMGSCv36mm8
Celera667,905,125 - 68,063,194 (+)NCBICelera
Cytogenetic Map6C1NCBI
cM Map630.32NCBI
Prdm5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542819,714,730 - 19,881,917 (+)Ensembl
ChiLan1.0NW_00495542819,684,721 - 19,881,716 (+)NCBIChiLan1.0ChiLan1.0
PRDM5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v23118,476,696 - 118,707,355 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan14118,761,096 - 118,995,386 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v04112,896,606 - 113,127,400 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.14124,036,911 - 124,252,056 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl4124,036,911 - 124,252,928 (-)EnsemblpanPan2panpan1.1
PRDM5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11919,129,418 - 19,327,377 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1919,129,081 - 19,325,590 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1919,352,083 - 19,548,712 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01919,256,009 - 19,455,852 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1919,256,016 - 19,455,852 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11919,214,952 - 19,414,721 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01919,486,468 - 19,686,537 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01919,965,407 - 20,165,939 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Prdm5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530166,595,007 - 66,730,445 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936662390,894 - 516,485 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936662388,279 - 524,803 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PRDM5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl8103,189,561 - 103,382,094 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.18103,188,312 - 103,383,955 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.28110,658,856 - 110,852,557 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PRDM5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1767,985,387 - 68,207,113 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl767,987,359 - 68,206,893 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366603746,952,855 - 47,174,019 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Prdm5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624777676,965 - 893,047 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_004624777675,215 - 893,125 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Prdm5
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1675,660,553 - 75,819,170 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Prdm5
772 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:111
Count of miRNA genes:71
Interacting mature miRNAs:79
Transcripts:ENSRNOT00000009569, ENSRNOT00000009675, ENSRNOT00000074542
Prediction methods:Microtar, 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
1582232Gluco25Glucose level QTL 253.60.0023blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)486583980149763391Rat
1358352Srcrt3Stress Responsive Cort QTL 32.29blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)439431983123203361Rat
1549843Bw53Body weight QTL 530.0001body mass (VT:0001259)body weight gain (CMO:0000420)459753119104753119Rat
1578655Bmd11Bone mineral density QTL 1111femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)492406430137406430Rat
10755501Bp390Blood pressure QTL 3902.5arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)427730518170099664Rat
1357342Bw40Body weight QTL 400.001body mass (VT:0001259)body weight (CMO:0000012)474233320119233320Rat
631556Bp135Blood pressure QTL 1350.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)480212111119233320Rat
1358363Sradr3Stress Responsive Adrenal Weight QTL 36.19adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)458817672103817672Rat
61330Eau1Experimental allergic uveoretinitis QTL 10.0003uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)426234499134199155Rat
70167Bw22Body weight QTL 223.1body mass (VT:0001259)body weight (CMO:0000012)474233320119233320Rat
1549839Bw52Body weight QTL 520.0001body mass (VT:0001259)body weight gain (CMO:0000420)471647492116647492Rat
70177Xhs1X-ray hypersensitivity QTL 125.1intestine integrity trait (VT:0010554)post-insult time to onset of moribundity (CMO:0001896)482944895154403548Rat
6909128Pancm4Pancreatic morphology QTL 411.35pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)427862204126119996Rat
61476Aia3Adjuvant induced arthritis QTL 33.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)475939858140508796Rat
1641919Alc22Alcohol consumption QTL 220.0005drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)465060960127749483Rat
1354660Salc1Saline consumption QTL 111.26drinking behavior trait (VT:0001422)saline drink intake rate (CMO:0001627)445429897149763204Rat
2317587Eae26Experimental allergic encephalomyelitis QTL 26nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)489986808101226978Rat
1298082Stresp4Stress response QTL 4blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)451085655113588029Rat
61364Iddm2Insulin dependent diabetes mellitus QTL 2blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)480216705104243248Rat
1578670Bss14Bone structure and strength QTL 1416.4femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)488883695133883695Rat
2317588Eae27Experimental allergic encephalomyelitis QTL 27nervous system integrity trait (VT:0010566)percentage of study population developing experimental autoimmune encephalomyelitis during a period of time (CMO:0001047)469036742114036742Rat
1300139Hrtrt6Heart rate QTL 62.85heart pumping trait (VT:2000009)heart rate (CMO:0000002)440490442117737312Rat
70200Alc18Alcohol consumption QTL 189.2drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)457613339151163960Rat
4889969Bss96Bone structure and strength QTL 964.9tibia size trait (VT:0100001)tibia cortical bone volume (CMO:0001725)457613242102613242Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)412212457182430611Rat
1578662Bss15Bone structure and strength QTL 1519.6femur width (VT:1000666)femoral neck width (CMO:0001695)488883695133883695Rat
4889972Bss97Bone structure and strength QTL 975.6tibia size trait (VT:0100001)tibia total bone volume (CMO:0001724)457613242102613242Rat
6478684Anxrr30Anxiety related response QTL 300.00087defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)464084079109084079Rat
5685009Bmd86Bone mineral density QTL 863.7tibia mineral mass (VT:1000283)bone mineral density (CMO:0001226)457613242102613242Rat
2306794Ean2Experimental allergic neuritis QTL 26.4nervous system integrity trait (VT:0010566)IFNG-secreting splenocyte count (CMO:0002122)48279077797183061Rat
2306547Iddm38Insulin dependent diabetes mellitus QTL 38blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)468353567113353567Rat
738009Sach4Saccharine consumption QTL 44.90.000016consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)460916264184426481Rat
2306545Iddm39Insulin dependent diabetes mellitus QTL 39blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)478687630123687630Rat
634335Anxrr16Anxiety related response QTL 167.22locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)494638356168870820Rat
6478772Anxrr49Anxiety related response QTL 490.15488defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)464084079109084079Rat
631646Stl4Serum triglyceride level QTL 46.50.0001blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)474169813134199155Rat
634334Xhs3X-ray hypersensitivity QTL 310intestine integrity trait (VT:0010554)post-insult time to onset of moribundity (CMO:0001896)486058928131411333Rat
2312569Pur19Proteinuria QTL 193.40.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)459836842104836842Rat
61406Scwia1Streptococcal cell wall induced arthritis QTL 12.3joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)475939858140508796Rat
1354612Foco1Food consumption QTL 18.87eating behavior trait (VT:0001431)food intake rate (CMO:0000427)445429897149763204Rat
2303168Bp330Blood pressure QTL 3304.250.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)45889999148002343Rat
738031Alc14Alcohol consumption QTL 147.60.00003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)460916264174095838Rat
631662Hcar2Hepatocarcinoma resistance QTL 23.10.0003liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)484349032129349032Rat
1576305Emca6Estrogen-induced mammary cancer QTL 65.8mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)445429709157555683Rat
631651Bp124Blood pressure QTL 1243arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)464209744109209744Rat
61418Pia5Pristane induced arthritis QTL 54.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)463245026129846354Rat
738016Alc16Alcohol consumption QTL 163.60.00015consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)460916264184426481Rat
1358202Gluco11Glucose level QTL 112.40.02adipocyte glucose uptake trait (VT:0004185)absolute change in adipocyte glucose uptake (CMO:0000873)486709649168870974Rat
1641833Alc21Alcohol consumption QTL 218.60.0001drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)457664252127749483Rat
2306899Bp338Blood pressure QTL 3380.071arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)482336765127336765Rat
631674Iddm14Insulin dependent diabetes mellitus QTL 14blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)465495851159259805Rat
6478743Anxrr40Anxiety related response QTL 400.83076defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)464084079109084079Rat
12798523Anxrr56Anxiety related response QTL 562.830.05locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)486583980131583980Rat
61434Cia3Collagen induced arthritis QTL 34.8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)463224393108224393Rat
12798520Anxrr55Anxiety related response QTL 554.450.01locomotor behavior trait (VT:0001392)number of rearing movements with lid-pushing in an experimental apparatus (CMO:0002715)433538597116185060Rat

Markers in Region
D4Rat77  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2495,128,056 - 95,128,221 (+)MAPPERmRatBN7.2
Rnor_6.0496,711,469 - 96,711,633NCBIRnor6.0
Rnor_5.04161,495,950 - 161,496,114UniSTSRnor5.0
RGSC_v3.4495,501,704 - 95,501,869RGDRGSC3.4
RGSC_v3.4495,501,705 - 95,501,869UniSTSRGSC3.4
Celera489,857,929 - 89,858,093UniSTS
RGSC_v3.1495,746,186 - 95,746,350RGD
RH 3.4 Map4590.5RGD
RH 3.4 Map4590.5UniSTS
RH 2.0 Map4601.9RGD
FHH x ACI Map459.12RGD
Cytogenetic Map4q31UniSTS
D4Got80  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2495,127,991 - 95,128,156 (+)MAPPERmRatBN7.2
Rnor_6.0496,711,404 - 96,711,568NCBIRnor6.0
Rnor_5.04161,495,885 - 161,496,049UniSTSRnor5.0
RGSC_v3.4495,501,639 - 95,501,804RGDRGSC3.4
RGSC_v3.4495,501,640 - 95,501,804UniSTSRGSC3.4
Celera489,857,864 - 89,858,028UniSTS
RGSC_v3.1495,746,121 - 95,746,285RGD
RH 3.4 Map4590.4RGD
RH 3.4 Map4590.4UniSTS
Cytogenetic Map4q31UniSTS
RH134159  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.04161,604,503 - 161,604,683UniSTSRnor5.0
Celera489,965,650 - 89,965,830UniSTS
RH 3.4 Map4588.8UniSTS
Cytogenetic Map4q31UniSTS


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 67 154 91 90 59 45 59 6 302 145 11 133 74 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000009569   ⟹   ENSRNOP00000009569
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl496,405,493 - 96,558,144 (+)Ensembl
mRatBN7.2 Ensembl495,075,787 - 95,228,349 (+)Ensembl
Rnor_6.0 Ensembl496,659,084 - 96,812,263 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000095255   ⟹   ENSRNOP00000095499
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl496,405,493 - 96,567,647 (+)Ensembl
mRatBN7.2 Ensembl495,075,787 - 95,237,869 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000102224   ⟹   ENSRNOP00000086425
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl496,405,632 - 96,567,647 (+)Ensembl
mRatBN7.2 Ensembl495,075,881 - 95,238,301 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000113591   ⟹   ENSRNOP00000080705
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl496,405,493 - 96,567,647 (+)Ensembl
mRatBN7.2 Ensembl495,075,768 - 95,237,893 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000130646   ⟹   ENSRNOP00000104580
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl496,405,493 - 96,567,647 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000152195   ⟹   ENSRNOP00000101667
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl496,454,687 - 96,567,647 (+)Ensembl
RefSeq Acc Id: NM_001427515   ⟹   NP_001414444
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8496,405,493 - 96,567,647 (+)NCBI
RefSeq Acc Id: XM_039108695   ⟹   XP_038964623
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8496,405,494 - 96,548,907 (+)NCBI
mRatBN7.2495,075,736 - 95,219,155 (+)NCBI
RefSeq Acc Id: XM_039108696   ⟹   XP_038964624
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8496,462,743 - 96,567,647 (+)NCBI
mRatBN7.2495,143,994 - 95,237,921 (+)NCBI
RefSeq Acc Id: XM_063286721   ⟹   XP_063142791
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8496,405,494 - 96,567,647 (+)NCBI
RefSeq Acc Id: XM_063286722   ⟹   XP_063142792
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8496,405,492 - 96,567,647 (+)NCBI
Ensembl Acc Id: ENSRNOP00000009569   ⟸   ENSRNOT00000009569
RefSeq Acc Id: XP_038964623   ⟸   XM_039108695
- Peptide Label: isoform X1
- UniProtKB: D3ZRZ9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038964624   ⟸   XM_039108696
- Peptide Label: isoform X2
Ensembl Acc Id: ENSRNOP00000095499   ⟸   ENSRNOT00000095255
Ensembl Acc Id: ENSRNOP00000086425   ⟸   ENSRNOT00000102224
Ensembl Acc Id: ENSRNOP00000080705   ⟸   ENSRNOT00000113591
RefSeq Acc Id: XP_063142792   ⟸   XM_063286722
- Peptide Label: isoform X4
- UniProtKB: A0A8I5ZQN7 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001414444   ⟸   NM_001427515
- UniProtKB: A6KF30 (UniProtKB/TrEMBL),   A0A8I5ZQN7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063142791   ⟸   XM_063286721
- Peptide Label: isoform X3
- UniProtKB: A0A8I6AMS1 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000104580   ⟸   ENSRNOT00000130646
Ensembl Acc Id: ENSRNOP00000101667   ⟸   ENSRNOT00000152195
Protein Domains
C2H2-type   SET

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZRZ9-F1-model_v2 AlphaFold D3ZRZ9 1-558 view protein structure

Transcriptome

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

Promoters
RGD ID:13693118
Promoter ID:EPDNEW_R3623
Type:multiple initiation site
Name:Prdm5_1
Description:PR/SET domain 5
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_6.0496,659,079 - 96,659,139EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1588700 AgrOrtholog
BioCyc Gene G2FUF-44595 BioCyc
Ensembl Genes ENSRNOG00000023679 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000009569 ENTREZGENE
  ENSRNOT00000009569.10 UniProtKB/TrEMBL
  ENSRNOT00000095255 ENTREZGENE
  ENSRNOT00000095255.2 UniProtKB/TrEMBL
  ENSRNOT00000102224.2 UniProtKB/TrEMBL
  ENSRNOT00000113591 ENTREZGENE
  ENSRNOT00000113591.2 UniProtKB/TrEMBL
  ENSRNOT00000130646.1 UniProtKB/TrEMBL
  ENSRNOT00000152195.1 UniProtKB/TrEMBL
Gene3D-CATH 2.170.270.10 UniProtKB/TrEMBL
  Classic Zinc Finger UniProtKB/TrEMBL
InterPro PRDM5_PR-SET UniProtKB/TrEMBL
  SET_dom UniProtKB/TrEMBL
  SET_dom_sf UniProtKB/TrEMBL
  Zinc_finger UniProtKB/TrEMBL
  Znf_C2H2/integrase_DNA-bd UniProtKB/TrEMBL
  Znf_C2H2_sf UniProtKB/TrEMBL
  Znf_PRDM5-like UniProtKB/TrEMBL
NCBI Gene 689788 ENTREZGENE
PANTHER C2H2-TYPE DOMAIN-CONTAINING PROTEIN UniProtKB/TrEMBL
  FI01424P UniProtKB/TrEMBL
  KRUEPPEL-LIKE FACTOR 2 UniProtKB/TrEMBL
  KRUEPPEL-LIKE TRANSCRIPTION FACTOR UniProtKB/TrEMBL
  PR DOMAIN ZINC FINGER PROTEIN UniProtKB/TrEMBL
  PR DOMAIN ZINC FINGER PROTEIN 5 UniProtKB/TrEMBL
  ZINC FINGER AND SCAN DOMAIN-CONTAINING UniProtKB/TrEMBL
  ZINC FINGER PROTEIN UniProtKB/TrEMBL
  ZINC FINGER PROTEIN UniProtKB/TrEMBL
  ZINC FINGER PROTEIN UniProtKB/TrEMBL
Pfam PRDM2_PR UniProtKB/TrEMBL
  zf-C2H2 UniProtKB/TrEMBL
  zf-C2H2_6 UniProtKB/TrEMBL
  zf-met UniProtKB/TrEMBL
PhenoGen Prdm5 PhenoGen
PIRSF PRDM UniProtKB/TrEMBL
PROSITE SET UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_1 UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000023679 RatGTEx
SMART SET UniProtKB/TrEMBL
  ZnF_C2H2 UniProtKB/TrEMBL
Superfamily-SCOP SSF57667 UniProtKB/TrEMBL
  SSF82199 UniProtKB/TrEMBL
UniProt A0A8I5ZQN7 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6A661_RAT UniProtKB/TrEMBL
  A0A8I6AMS1 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0L0P0_RAT UniProtKB/TrEMBL
  A0ABK0LNR1_RAT UniProtKB/TrEMBL
  A6KF30 ENTREZGENE, UniProtKB/TrEMBL
  D3ZRZ9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-07-27 Prdm5  PR/SET domain 5  Prdm5  PR domain 5  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-02-03 Prdm5  PR domain 5  Prdm5  PR domain containing 5  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-06 Prdm5  PR domain containing 5  LOC689788  similar to PR domain containing 5  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC689788  similar to PR domain containing 5  LOC683647  similar to PR domain containing 5  Data merged from RGD:1584505 1643240 APPROVED
2006-11-19 LOC689788  similar to PR domain containing 5      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC683647  similar to PR domain containing 5      Symbol and Name status set to provisional 70820 PROVISIONAL