Hpf1 (histone PARylation factor 1) - Rat Genome Database

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Gene: Hpf1 (histone PARylation factor 1) Rattus norvegicus
Analyze
Symbol: Hpf1
Name: histone PARylation factor 1
RGD ID: 1311747
Description: Predicted to enable several functions, including histone binding activity; poly-ADP-D-ribose binding activity; and protein ADP-ribosyltransferase-substrate adaptor activity. Predicted to be involved in DNA repair-dependent chromatin remodeling and double-strand break repair. Predicted to act upstream of or within DNA repair; protein localization to chromatin; and protein poly-ADP-ribosylation. Predicted to be located in chromatin. Predicted to be active in nucleus and site of DNA damage. Orthologous to human HPF1 (histone PARylation factor 1); INTERACTS WITH 17beta-estradiol; 4,4'-sulfonyldiphenol; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: hypothetical protein LOC290706; LOC290706; RGD1311747; similar to 2700029M09Rik protein; uncharacterized protein LOC290706; UPF0609 protein C4orf27 homolog
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
GRCr81634,211,971 - 34,230,551 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1634,193,421 - 34,253,210 (-)EnsemblGRCr8
mRatBN7.21629,203,749 - 29,219,651 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1629,183,256 - 29,219,716 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1632,798,620 - 32,814,503 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01636,232,348 - 36,248,229 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01632,433,869 - 32,449,730 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01632,524,128 - 32,540,233 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1632,519,924 - 32,540,217 (-)Ensemblrn6Rnor6.0
Rnor_5.01632,358,968 - 32,375,073 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41632,523,650 - 32,539,537 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1629,198,257 - 29,214,140 (-)NCBICelera
RGSC_v3.11632,523,724 - 32,539,655 (-)NCBI
Cytogenetic Map16p12NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
chromatin  (IEA,ISO)
chromosome  (IEA)
nucleus  (IBA,IEA,ISO)
site of DNA damage  (IEA,ISO)

Molecular Function

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
Additional References at PubMed
PMID:8889548   PMID:27067600   PMID:28190768   PMID:29480802   PMID:37713069  


Genomics

Comparative Map Data
Hpf1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81634,211,971 - 34,230,551 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1634,193,421 - 34,253,210 (-)EnsemblGRCr8
mRatBN7.21629,203,749 - 29,219,651 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1629,183,256 - 29,219,716 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1632,798,620 - 32,814,503 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01636,232,348 - 36,248,229 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01632,433,869 - 32,449,730 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01632,524,128 - 32,540,233 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1632,519,924 - 32,540,217 (-)Ensemblrn6Rnor6.0
Rnor_5.01632,358,968 - 32,375,073 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41632,523,650 - 32,539,537 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1629,198,257 - 29,214,140 (-)NCBICelera
RGSC_v3.11632,523,724 - 32,539,655 (-)NCBI
Cytogenetic Map16p12NCBI
HPF1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh384169,729,470 - 169,757,944 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl4169,729,468 - 169,757,944 (-)Ensemblhg38GRCh38
GRCh374170,650,621 - 170,679,095 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 364170,887,194 - 170,915,668 (-)NCBIBuild 36Build 36hg18NCBI36
Celera4167,983,601 - 168,012,093 (-)NCBICelera
Cytogenetic Map4q33NCBI
HuRef4166,405,437 - 166,433,881 (-)NCBIHuRef
CHM1_14170,627,188 - 170,655,678 (-)NCBICHM1_1
T2T-CHM13v2.04173,089,586 - 173,118,075 (-)NCBIT2T-CHM13v2.0
Hpf1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39861,342,533 - 61,360,615 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl861,343,452 - 61,361,705 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38860,890,392 - 60,907,580 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl860,890,418 - 60,908,671 (+)Ensemblmm10GRCm38
MGSCv37863,369,248 - 63,386,369 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36863,648,378 - 63,799,724 (+)NCBIMGSCv36mm8
Celera863,457,542 - 63,474,667 (+)NCBICelera
Cytogenetic Map8B3.1NCBI
cM Map830.9NCBI
LOC102030373
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540336,594,269 - 36,622,724 (+)Ensembl
ChiLan1.0NW_00495540336,594,319 - 36,621,020 (+)NCBIChiLan1.0ChiLan1.0
LOC100991754
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v23167,506,176 - 167,534,704 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan14167,862,061 - 167,890,643 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v04161,949,343 - 161,977,887 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.14174,021,060 - 174,049,213 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl4174,021,060 - 174,049,213 (-)EnsemblpanPan2panpan1.1
HPF1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12520,622,781 - 20,645,459 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2520,622,774 - 20,644,822 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2521,257,443 - 21,279,874 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02520,798,645 - 20,821,091 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2520,798,649 - 20,820,457 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12520,682,932 - 20,705,345 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02520,618,769 - 20,641,207 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02520,718,372 - 20,740,811 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
LOC101970824
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494321,349,641 - 21,371,280 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049365161,763,935 - 1,785,538 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HPF1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1420,014,274 - 20,039,332 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11420,014,254 - 20,037,791 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21421,313,121 - 21,329,267 (+)NCBISscrofa10.2Sscrofa10.2susScr3
HPF1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.17115,934,687 - 115,966,404 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl7115,934,692 - 115,966,369 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366603795,880,912 - 95,912,880 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
LOC101705414
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247691,239,455 - 1,261,901 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247691,239,399 - 1,261,770 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
LOC116914685
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11328,103,365 - 28,119,100 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Hpf1
102 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:34
Count of miRNA genes:32
Interacting mature miRNAs:34
Transcripts:ENSRNOT00000015130
Prediction methods: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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
7411664Foco30Food consumption QTL 30110.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)16435482249354822Rat
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)longest distance run on treadmill (CMO:0001406)1638712345387123Rat
1549842Bp248Blood pressure QTL 2480.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1638712345387123Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)16423421249757901Rat
737826Alc11Alcohol consumption QTL 113.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16423421266955197Rat
2302057Pia29Pristane induced arthritis QTL 293.60.001blood autoantibody amount (VT:0003725)serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)162846870173468701Rat
1354584Despr6Despair related QTL 63.10.0067locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16139568015Rat
2303566Bw90Body weight QTL 902body mass (VT:0001259)body weight (CMO:0000012)16139568015Rat
1357403Slep4Serum leptin concentration QTL 43.91blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)163236104377361043Rat
737819Hcas4Hepatocarcinoma susceptibility QTL 44.43liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)16423421253708481Rat
8694453Bw172Body weight QTL 1728.330.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)163105803976058039Rat
2312663Slep9Serum leptin concentration QTL 90.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1683908666195506Rat
2306902Bp339Blood pressure QTL 3390.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16338679049757901Rat
1354625Despr7Despair related QTL 73.160.016locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16474422249744222Rat
2312660Bw95Body weight QTL 950.05inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)1683908666195506Rat
6903294Stl30Serum triglyceride level QTL 302.60.0013blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)163188527176885271Rat
2312666Insul16Insulin level QTL 160.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1683908666195506Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161773081872536785Rat
2293343Glom16Glomerulus QTL 167.4kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1683908652786090Rat
2301406Kidm39Kidney mass QTL 390.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)161590580260905802Rat
2312669Stl23Serum triglyceride level QTL 230.01blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1683908666195506Rat
6903319Bw114Body weight QTL 1142.70.0037body mass (VT:0001259)body weight (CMO:0000012)16330168348301683Rat


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 67 165 91 90 59 91 59 6 355 191 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000015130   ⟹   ENSRNOP00000015130
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1634,214,610 - 34,253,210 (-)Ensembl
mRatBN7.2 Ensembl1629,197,350 - 29,219,716 (-)Ensembl
Rnor_6.0 Ensembl1632,519,924 - 32,540,217 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000110610   ⟹   ENSRNOP00000090996
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1634,193,421 - 34,230,487 (-)Ensembl
mRatBN7.2 Ensembl1629,183,256 - 29,219,716 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000146591   ⟹   ENSRNOP00000109639
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1634,213,215 - 34,230,487 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000157566   ⟹   ENSRNOP00000108416
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1634,207,327 - 34,230,487 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000167471   ⟹   ENSRNOP00000102901
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1634,209,455 - 34,230,487 (-)Ensembl
RefSeq Acc Id: NM_001169105   ⟹   NP_001162576
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81634,214,600 - 34,230,487 (-)NCBI
mRatBN7.21629,203,749 - 29,219,640 (-)NCBI
Rnor_6.01632,524,128 - 32,540,233 (-)NCBI
Rnor_5.01632,358,968 - 32,375,073 (-)NCBI
RGSC_v3.41632,523,650 - 32,539,537 (-)RGD
Celera1629,198,257 - 29,214,140 (-)RGD
Sequence:
RefSeq Acc Id: XM_063275224   ⟹   XP_063131294
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81634,211,971 - 34,230,551 (-)NCBI
RefSeq Acc Id: NP_001162576   ⟸   NM_001169105
- UniProtKB: A6KIS6 (UniProtKB/TrEMBL),   D3ZMN2 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000015130   ⟸   ENSRNOT00000015130
Ensembl Acc Id: ENSRNOP00000090996   ⟸   ENSRNOT00000110610
RefSeq Acc Id: XP_063131294   ⟸   XM_063275224
- Peptide Label: isoform X1
- UniProtKB: D3ZMN2 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000102901   ⟸   ENSRNOT00000167471
Ensembl Acc Id: ENSRNOP00000109639   ⟸   ENSRNOT00000146591
Ensembl Acc Id: ENSRNOP00000108416   ⟸   ENSRNOT00000157566

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZMN2-F1-model_v2 AlphaFold D3ZMN2 1-370 view protein structure

Transcriptome

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

Promoters
RGD ID:13700072
Promoter ID:EPDNEW_R10595
Type:multiple initiation site
Name:Hpf1_1
Description:histone PARylation factor 1
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_6.01632,540,243 - 32,540,303EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311747 AgrOrtholog
BioCyc Gene G2FUF-11574 BioCyc
Ensembl Genes ENSRNOG00000011293 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000015130 ENTREZGENE
  ENSRNOT00000015130.9 UniProtKB/TrEMBL
  ENSRNOT00000110610.2 UniProtKB/TrEMBL
  ENSRNOT00000146591 ENTREZGENE
  ENSRNOT00000146591.1 UniProtKB/TrEMBL
  ENSRNOT00000157566.1 UniProtKB/TrEMBL
  ENSRNOT00000167471.1 UniProtKB/TrEMBL
InterPro DUF2228 UniProtKB/TrEMBL
KEGG Report rno:290706 UniProtKB/TrEMBL
NCBI Gene 290706 ENTREZGENE
PANTHER HISTONE PARYLATION FACTOR 1 UniProtKB/TrEMBL
  PTHR13386 UniProtKB/TrEMBL
Pfam DUF2228 UniProtKB/TrEMBL
PhenoGen Hpf1 PhenoGen
RatGTEx ENSRNOG00000011293 RatGTEx
UniProt A0A8I6AFC5_RAT UniProtKB/TrEMBL
  A0ABK0LEX8_RAT UniProtKB/TrEMBL
  A0ABK0LWB8_RAT UniProtKB/TrEMBL
  A0ABK0M4M5_RAT UniProtKB/TrEMBL
  A6KIS6 ENTREZGENE, UniProtKB/TrEMBL
  A6KIS7_RAT UniProtKB/TrEMBL
  D3ZMN2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-05-04 Hpf1  histone PARylation factor 1  RGD1311747  similar to 2700029M09Rik protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1311747  similar to 2700029M09Rik protein   RGD1311747_predicted  similar to 2700029M09Rik protein (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-20 RGD1311747_predicted  similar to 2700029M09Rik protein (predicted)  LOC290706_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC290706_predicted  similar to 2700029M09Rik protein (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL