Pml (PML nuclear body scaffold) - Rat Genome Database

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Pathways
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Gene: Pml (PML nuclear body scaffold) Heterocephalus glaber
Analyze
Symbol: Pml
Name: PML nuclear body scaffold (Ensembl:promyelocytic leukemia)
RGD ID: 18916399
Description: ENCODES a protein that exhibits cobalt ion binding (ortholog); identical protein binding (ortholog); protein heterodimerization activity (ortholog); INVOLVED IN apoptotic process (ortholog); branching involved in mammary gland duct morphogenesis (ortholog); cell fate commitment (ortholog); PARTICIPATES IN mTOR signaling pathway; transforming growth factor-beta Smad dependent signaling pathway; ASSOCIATED WITH acute promyelocytic leukemia (ortholog); Bardet-Biedl syndrome (ortholog); Bloom syndrome (ortholog); FOUND IN nuclear membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: promyelocytic leukemia; protein PML; Putative transcription factor PML
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: HetGla 1.0 - Naked Mole-Rat female 1.0 Assembly
Position:
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624781464,658 - 497,775 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624781464,858 - 498,146 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
apoptotic process  (ISO)
branching involved in mammary gland duct morphogenesis  (IEA,ISO)
cell fate commitment  (IEA,ISO)
cellular response to interleukin-4  (IEA,ISO)
cellular response to leukemia inhibitory factor  (IEA,ISO)
cellular senescence  (IEA)
chromatin remodeling  (ISO)
circadian regulation of gene expression  (IEA)
DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest  (IEA)
endoplasmic reticulum calcium ion homeostasis  (IEA)
entrainment of circadian clock by photoperiod  (IEA)
extrinsic apoptotic signaling pathway  (IEA,ISO)
fibroblast migration  (IEA)
innate immune response  (IEA)
intrinsic apoptotic signaling pathway by p53 class mediator  (IEA,ISO)
intrinsic apoptotic signaling pathway in response to DNA damage  (IEA,ISO)
intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator  (IEA)
intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress  (IEA,ISO)
intrinsic apoptotic signaling pathway in response to oxidative stress  (IEA,ISO)
maintenance of protein location in nucleus  (IEA,ISO)
myeloid cell differentiation  (IEA,ISO)
negative regulation of angiogenesis  (IEA,ISO)
negative regulation of cell growth  (IEA)
negative regulation of cell population proliferation  (IEA,ISO)
negative regulation of DNA-templated transcription  (IEA)
negative regulation of interleukin-1 beta production  (IEA)
negative regulation of interleukin-1 production  (IEA)
negative regulation of mitotic cell cycle  (ISO)
negative regulation of telomere maintenance via telomerase  (ISO)
negative regulation of translation in response to oxidative stress  (ISO)
negative regulation of ubiquitin-dependent protein catabolic process  (IEA)
oncogene-induced cell senescence  (IEA)
PML body organization  (IEA,ISO)
positive regulation of apoptotic process involved in mammary gland involution  (ISO)
positive regulation of apoptotic signaling pathway  (IEA,ISO)
positive regulation of defense response to virus by host  (ISO)
positive regulation of extrinsic apoptotic signaling pathway  (IEA)
positive regulation of fibroblast proliferation  (IEA)
positive regulation of peptidyl-lysine acetylation  (IEA)
positive regulation of protein localization to chromosome, telomeric region  (ISO)
positive regulation of signal transduction by p53 class mediator  (IEA)
positive regulation of telomere maintenance  (IEA)
proteasome-mediated ubiquitin-dependent protein catabolic process  (IEA)
protein import into nucleus  (IEA,ISO)
protein monoubiquitination  (IEA)
protein stabilization  (ISO)
protein targeting  (ISO)
protein-containing complex assembly  (IEA)
protein-containing complex localization  (IEA,ISO)
regulation of calcium ion transport into cytosol  (IEA)
regulation of cell adhesion  (IEA)
regulation of cell cycle  (ISO)
regulation of circadian rhythm  (IEA)
regulation of DNA-templated transcription  (IEA)
regulation of double-strand break repair  (IEA)
response to cytokine  (IEA)
response to gamma radiation  (IEA,ISO)
response to hypoxia  (IEA,ISO)
response to UV  (IEA,ISO)
retinoic acid receptor signaling pathway  (IEA,ISO)
SMAD protein signal transduction  (IEA,ISO)
suppression of viral release by host  (IEA)
transforming growth factor beta receptor signaling pathway  (IEA,ISO)

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:21993625   PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Pml
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624781464,658 - 497,775 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624781464,858 - 498,146 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2
PML
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381573,994,716 - 74,047,827 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1573,994,673 - 74,047,827 (+)EnsemblGRCh38hg38GRCh38
GRCh371574,287,057 - 74,340,168 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361572,074,067 - 72,127,213 (+)NCBINCBI36Build 36hg18NCBI36
Build 341572,074,066 - 72,115,787NCBI
Celera1551,164,334 - 51,230,308 (+)NCBICelera
Cytogenetic Map15q24.1NCBI
HuRef1551,118,849 - 51,172,183 (+)NCBIHuRef
CHM1_11574,404,975 - 74,458,114 (+)NCBICHM1_1
T2T-CHM13v2.01571,812,061 - 71,865,194 (+)NCBIT2T-CHM13v2.0
Pml
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39958,125,359 - 58,157,077 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl958,125,359 - 58,157,069 (-)EnsemblGRCm39 Ensembl
GRCm38958,217,179 - 58,249,796 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl958,218,076 - 58,249,786 (-)EnsemblGRCm38mm10GRCm38
MGSCv37958,064,986 - 58,097,593 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36958,016,679 - 58,047,923 (-)NCBIMGSCv36mm8
Celera955,451,359 - 55,484,054 (-)NCBICelera
Cytogenetic Map9BNCBI
cM Map931.63NCBI
Pml
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8867,523,164 - 67,557,801 (-)NCBIGRCr8
mRatBN7.2858,627,347 - 58,661,927 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl858,628,837 - 58,658,971 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.0863,002,515 - 63,034,310 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl863,004,870 - 63,034,226 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0862,778,563 - 62,810,283 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4862,020,438 - 62,051,927 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera858,089,954 - 58,121,691 (-)NCBICelera
Cytogenetic Map8q24NCBI
Pml
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554503,656,498 - 3,692,406 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554503,654,854 - 3,692,057 (-)NCBIChiLan1.0ChiLan1.0
PML
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21663,217,504 - 63,269,639 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11567,381,987 - 67,433,255 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01552,903,874 - 52,955,151 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11571,658,884 - 71,710,883 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1571,658,884 - 71,710,883 (+)Ensemblpanpan1.1panPan2
PML
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13037,232,337 - 37,278,434 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3037,232,306 - 37,277,741 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3037,167,830 - 37,214,029 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03037,439,424 - 37,485,481 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3037,439,414 - 37,485,559 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13037,391,257 - 37,437,382 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03037,417,163 - 37,463,467 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03037,673,462 - 37,719,075 (+)NCBIUU_Cfam_GSD_1.0
Pml
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640115,287,097 - 115,329,964 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647133,135,164 - 33,177,666 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647133,135,186 - 33,173,218 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PML
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl759,405,053 - 59,450,105 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1759,405,044 - 59,450,155 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2764,023,286 - 64,071,578 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PML
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1269,441,998 - 9,494,949 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl269,451,112 - 9,494,931 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666048132,120,299 - 132,175,245 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSHGLT00000023337   ⟹   ENSHGLP00000023122
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_004624781464,658 - 497,775 (-)Ensembl
RefSeq Acc Id: XM_004855484   ⟹   XP_004855541
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_004624781464,858 - 498,146 (-)NCBI
RefSeq Acc Id: XM_013076249   ⟹   XP_012931703
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_004624781475,337 - 498,137 (-)NCBI
RefSeq Acc Id: XM_013076251   ⟹   XP_012931705
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_004624781467,813 - 498,137 (-)NCBI
RefSeq Acc Id: XM_013076252   ⟹   XP_012931706
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_004624781470,456 - 498,136 (-)NCBI
RefSeq Acc Id: XM_021236952   ⟹   XP_021092611
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_004624781475,337 - 498,138 (-)NCBI
RefSeq Acc Id: XM_021236953   ⟹   XP_021092612
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_004624781476,175 - 497,903 (-)NCBI
RefSeq Acc Id: XM_021236954   ⟹   XP_021092613
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_004624781476,236 - 497,903 (-)NCBI
RefSeq Acc Id: XM_021236955   ⟹   XP_021092614
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_004624781468,893 - 497,903 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: XP_004855541   ⟸   XM_004855484
- Peptide Label: isoform X1
- UniProtKB: G5BRF9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_012931705   ⟸   XM_013076251
- Peptide Label: isoform X4
RefSeq Acc Id: XP_021092614   ⟸   XM_021236955
- Peptide Label: isoform X6
RefSeq Acc Id: XP_012931706   ⟸   XM_013076252
- Peptide Label: isoform X5
RefSeq Acc Id: XP_021092611   ⟸   XM_021236952
- Peptide Label: isoform X2
RefSeq Acc Id: XP_012931703   ⟸   XM_013076249
- Peptide Label: isoform X3
RefSeq Acc Id: XP_021092612   ⟸   XM_021236953
- Peptide Label: isoform X6
RefSeq Acc Id: XP_021092613   ⟸   XM_021236954
- Peptide Label: isoform X6
RefSeq Acc Id: ENSHGLP00000023122   ⟸   ENSHGLT00000023337


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000016489 Ensembl, ENTREZGENE
  ENSHGLG00100001273 UniProtKB/TrEMBL
Ensembl Transcript ENSHGLT00000023337 ENTREZGENE
  ENSHGLT00100088680 UniProtKB/TrEMBL
Gene3D-CATH 3.30.40.10 UniProtKB/TrEMBL
  Classic Zinc Finger UniProtKB/TrEMBL
InterPro DUF3583 UniProtKB/TrEMBL
  TRIM45/56/19 UniProtKB/TrEMBL
  Znf_B-box UniProtKB/TrEMBL
  Znf_RING UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/TrEMBL
  Znf_RING_CS UniProtKB/TrEMBL
KEGG Report hgl:101707749 UniProtKB/TrEMBL
NCBI Gene Pml ENTREZGENE
PANTHER BONUS, ISOFORM C-RELATED UniProtKB/TrEMBL
  PROTEIN PML UniProtKB/TrEMBL
Pfam DUF3583 UniProtKB/TrEMBL
  zf-B_box UniProtKB/TrEMBL
PROSITE ZF_BBOX UniProtKB/TrEMBL
  ZF_RING_1 UniProtKB/TrEMBL
  ZF_RING_2 UniProtKB/TrEMBL
SMART BBOX UniProtKB/TrEMBL
  RING UniProtKB/TrEMBL
Superfamily-SCOP RING/U-box UniProtKB/TrEMBL
UniProt G5BRF9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2020-04-14 Pml  PML nuclear body scaffold  Pml  promyelocytic leukemia  Symbol and/or name change 5135510 APPROVED