Polh (DNA polymerase eta) - Rat Genome Database

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Gene: Polh (DNA polymerase eta) Rattus norvegicus
Analyze
Symbol: Polh
Name: DNA polymerase eta
RGD ID: 1309893
Description: Predicted to enable DNA-directed DNA polymerase activity. Predicted to be involved in error-prone translesion synthesis and response to UV-C. Predicted to act upstream of or within cellular response to UV-C; postreplication repair; and pyrimidine dimer repair. Predicted to be located in cytosol and nucleoplasm. Predicted to be active in nucleus; replication fork; and site of double-strand break. Human ortholog(s) of this gene implicated in female breast cancer and xeroderma pigmentosum variant type. Orthologous to human POLH (DNA polymerase eta); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: DNA-directed DNA polymerase eta; LOC316235; polymerase (DNA directed), eta; polymerase (DNA directed), eta (RAD 30 related); polymerase (DNA) eta
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8922,275,929 - 22,310,576 (+)NCBIGRCr8
mRatBN7.2914,778,355 - 14,813,210 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl914,777,888 - 14,812,723 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx923,362,765 - 23,396,678 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0928,425,448 - 28,459,256 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0926,726,187 - 26,760,102 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0917,163,354 - 17,198,006 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl917,163,354 - 17,197,132 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0916,059,843 - 16,094,495 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4910,341,975 - 10,375,983 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1910,342,536 - 10,372,506 (+)NCBI
Celera912,525,667 - 12,559,453 (+)NCBICelera
Cytogenetic Map9q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

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. Familial breast cancer and DNA repair genes: Insights into known and novel susceptibility genes from the GENESIS study, and implications for multigene panel testing. Girard E, etal., Int J Cancer. 2019 Apr 15;144(8):1962-1974. doi: 10.1002/ijc.31921. Epub 2018 Nov 13.
3. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
4. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
5. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
8. Comprehensive gene review and curation RGD comprehensive gene curation
Additional References at PubMed
PMID:10871396   PMID:17114294   PMID:17563354  


Genomics

Comparative Map Data
Polh
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8922,275,929 - 22,310,576 (+)NCBIGRCr8
mRatBN7.2914,778,355 - 14,813,210 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl914,777,888 - 14,812,723 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx923,362,765 - 23,396,678 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0928,425,448 - 28,459,256 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0926,726,187 - 26,760,102 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0917,163,354 - 17,198,006 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl917,163,354 - 17,197,132 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0916,059,843 - 16,094,495 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4910,341,975 - 10,375,983 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1910,342,536 - 10,372,506 (+)NCBI
Celera912,525,667 - 12,559,453 (+)NCBICelera
Cytogenetic Map9q12NCBI
POLH
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38643,576,185 - 43,620,523 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl643,576,185 - 43,620,523 (+)EnsemblGRCh38hg38GRCh38
GRCh37643,543,922 - 43,588,260 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36643,651,923 - 43,691,357 (+)NCBINCBI36Build 36hg18NCBI36
Build 34643,651,922 - 43,691,357NCBI
Celera645,095,499 - 45,139,881 (+)NCBICelera
Cytogenetic Map6p21.1NCBI
HuRef643,263,100 - 43,307,435 (+)NCBIHuRef
CHM1_1643,546,961 - 43,591,323 (+)NCBICHM1_1
T2T-CHM13v2.0643,404,918 - 43,449,256 (+)NCBIT2T-CHM13v2.0
Polh
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391746,482,281 - 46,513,567 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1746,482,281 - 46,513,571 (-)EnsemblGRCm39 Ensembl
GRCm381746,171,355 - 46,202,641 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1746,171,355 - 46,202,645 (-)EnsemblGRCm38mm10GRCm38
MGSCv371746,308,942 - 46,339,574 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361745,635,574 - 45,666,206 (-)NCBIMGSCv36mm8
Celera1749,603,456 - 49,633,922 (-)NCBICelera
Cytogenetic Map17CNCBI
cM Map1722.9NCBI
Polh
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554379,397,141 - 9,414,042 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554379,392,484 - 9,409,186 (+)NCBIChiLan1.0ChiLan1.0
POLH
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2558,076,233 - 58,118,698 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1653,946,017 - 53,987,099 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0643,168,195 - 43,205,811 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1644,462,225 - 44,495,078 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl644,462,225 - 44,495,704 (+)Ensemblpanpan1.1panPan2
POLH
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11212,034,544 - 12,070,305 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1212,034,583 - 12,069,707 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1212,060,988 - 12,098,002 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01212,518,145 - 12,555,505 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1212,518,182 - 12,553,980 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11212,043,615 - 12,080,592 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01212,130,512 - 12,167,624 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01212,224,132 - 12,261,137 (+)NCBIUU_Cfam_GSD_1.0
Polh
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494647,525,646 - 47,560,795 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647616,401,517 - 16,429,287 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647616,400,026 - 16,434,538 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
POLH
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl738,567,788 - 38,601,790 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1738,569,211 - 38,601,794 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2744,152,173 - 44,184,314 (+)NCBISscrofa10.2Sscrofa10.2susScr3
POLH
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11728,548,454 - 28,585,232 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1728,549,623 - 28,585,206 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604443,630,644 - 43,669,142 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Polh
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475416,062,744 - 16,080,042 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475416,061,874 - 16,083,247 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Polh
162 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:339
Count of miRNA genes:215
Interacting mature miRNAs:239
Transcripts:ENSRNOT00000026049
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
70226Eae4Experimental allergic encephalomyelitis QTL 4nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)9125661317Rat
9589055Scfw5Subcutaneous fat weight QTL 55.550.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)9137999212Rat
7411592Foco8Food consumption QTL 87.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9137999212Rat
9589158Gluco65Glucose level QTL 656.820.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)9137999212Rat
1300124Cm4Cardiac mass QTL 43.55heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)9140594091Rat
1298088Edpm11Estrogen-dependent pituitary mass QTL 112.5pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)9143718459Rat
1641911Alcrsp13Alcohol response QTL 13response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)9143718459Rat
10054125Srcrt7Stress Responsive Cort QTL 73.330.0011blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)9187073594Rat
1331757Cdexp1CD45RC expression in CD8 T cells QTL 14.3CD8-positive T cell quantity (VT:0008077)blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)9102453767509080Rat
1354650Despr5Despair related QTL 54.010.0017locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)9125408446254084Rat
2303559Gluco54Glucose level QTL 542blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)9125408446254084Rat
61425Cia15Collagen induced arthritis QTL 154.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)9510982642921101Rat
631211Bw4Body weight QTL45.31retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)9510982650109826Rat
11353947Bp392Blood pressure QTL 392arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)9728325252283252Rat
61450Ciaa3CIA Autoantibody QTL 36.5blood autoantibody amount (VT:0003725)calculated serum anti-type 2 collagen antibody titer (CMO:0001279)9795472022071169Rat
9589133Insul26Insulin level QTL 2617.960.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)9895256053952560Rat
7411609Foco16Food consumption QTL 1625.60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9895256053952560Rat
1600365Mcs20Mammary carcinoma susceptibility QTL 203mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)91353377042791750Rat


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 19 10 16 10 8 10 15 2
Low 1 43 38 31 3 31 8 11 66 25 26 9 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000026049   ⟹   ENSRNOP00000026049
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl914,778,363 - 14,811,885 (+)Ensembl
Rnor_6.0 Ensembl917,163,354 - 17,197,132 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000099257   ⟹   ENSRNOP00000083995
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl914,777,888 - 14,812,723 (+)Ensembl
RefSeq Acc Id: NM_001108204   ⟹   NP_001101674
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8922,275,929 - 22,309,707 (+)NCBI
mRatBN7.2914,778,355 - 14,812,141 (+)NCBI
Rnor_6.0917,163,354 - 17,197,132 (+)NCBI
Rnor_5.0916,059,843 - 16,094,495 (+)NCBI
RGSC_v3.4910,341,975 - 10,375,983 (+)RGD
Celera912,525,667 - 12,559,453 (+)RGD
Sequence:
RefSeq Acc Id: XM_006244537   ⟹   XP_006244599
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8922,279,165 - 22,310,576 (+)NCBI
mRatBN7.2914,781,592 - 14,813,210 (+)NCBI
Rnor_6.0917,166,641 - 17,198,006 (+)NCBI
Rnor_5.0916,059,843 - 16,094,495 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039083534   ⟹   XP_038939462
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8922,279,930 - 22,310,576 (+)NCBI
mRatBN7.2914,782,356 - 14,813,210 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001101674 (Get FASTA)   NCBI Sequence Viewer  
  XP_006244599 (Get FASTA)   NCBI Sequence Viewer  
  XP_038939462 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM18802 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000026049
  ENSRNOP00000026049.2
  ENSRNOP00000083995
  ENSRNOP00000083995.1
Reference Protein Sequences
RefSeq Acc Id: NP_001101674   ⟸   NM_001108204
- UniProtKB: D4ADZ0 (UniProtKB/TrEMBL),   A6JIT0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006244599   ⟸   XM_006244537
- Peptide Label: isoform X1
- UniProtKB: A0A8I6GBC6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000026049   ⟸   ENSRNOT00000026049
RefSeq Acc Id: XP_038939462   ⟸   XM_039083534
- Peptide Label: isoform X2
RefSeq Acc Id: ENSRNOP00000083995   ⟸   ENSRNOT00000099257
Protein Domains
UBZ3-type   UmuC

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4ADZ0-F1-model_v2 AlphaFold D4ADZ0 1-689 view protein structure

Transcriptome

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

Promoters
RGD ID:13696532
Promoter ID:EPDNEW_R7055
Type:multiple initiation site
Name:Polh_1
Description:DNA polymerase eta
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_6.0917,163,384 - 17,163,444EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309893 AgrOrtholog
BioCyc Gene G2FUF-28208 BioCyc
Ensembl Genes ENSRNOG00000019195 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000026049 ENTREZGENE
  ENSRNOT00000026049.4 UniProtKB/TrEMBL
  ENSRNOT00000099257.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.1490.100 UniProtKB/TrEMBL
  3.30.70.270 UniProtKB/TrEMBL
  3.40.1170.60 UniProtKB/TrEMBL
  5' to 3' exonuclease, C-terminal subdomain UniProtKB/TrEMBL
InterPro DNA/RNA_pol_sf UniProtKB/TrEMBL
  DNA_pol_Y-fam_lit_finger_sf UniProtKB/TrEMBL
  DNA_pol_Y-fam_little_finger UniProtKB/TrEMBL
  DNA_repair_prot_UmuC-like UniProtKB/TrEMBL
  Rev_trsase/Diguanyl_cyclase UniProtKB/TrEMBL
  Znf_UBZ UniProtKB/TrEMBL
KEGG Report rno:316235 UniProtKB/TrEMBL
NCBI Gene 316235 ENTREZGENE
PANTHER DNA POLYMERASE ETA UniProtKB/TrEMBL
  DNA POLYMERASE ETA UniProtKB/TrEMBL
Pfam IMS UniProtKB/TrEMBL
  IMS_C UniProtKB/TrEMBL
  POLH-Rev1_HhH UniProtKB/TrEMBL
  zf_UBZ UniProtKB/TrEMBL
PhenoGen Polh PhenoGen
PIRSF DPol_eta UniProtKB/TrEMBL
PROSITE UMUC UniProtKB/TrEMBL
  ZF_UBZ3 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000019195 RatGTEx
Superfamily-SCOP DNA_pol_Y-fam_little_finger UniProtKB/TrEMBL
  SSF56672 UniProtKB/TrEMBL
UniProt A0A8I6GBC6 ENTREZGENE, UniProtKB/TrEMBL
  A6JIT0 ENTREZGENE, UniProtKB/TrEMBL
  D4ADZ0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-07-21 Polh  DNA polymerase eta  Polh  polymerase (DNA) eta  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-03-09 Polh  polymerase (DNA) eta  Polh  polymerase (DNA directed), eta  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-08-29 Polh  polymerase (DNA directed), eta  Polh  polymerase (DNA directed), eta (RAD 30 related)   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Polh  polymerase (DNA directed), eta (RAD 30 related)   Polh_predicted  polymerase (DNA directed), eta (RAD 30 related) (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Polh_predicted  polymerase (DNA directed), eta (RAD 30 related) (predicted)      Symbol and Name status set to approved 70820 APPROVED