Pml (PML nuclear body scaffold) - Rat Genome Database

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Gene: Pml (PML nuclear body scaffold) Ictidomys tridecemlineatus
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Symbol: Pml
Name: PML nuclear body scaffold
RGD ID: 12637195
Description: ENCODES a protein that exhibits cobalt ion binding (ortholog); identical protein binding (ortholog); protein heterodimerization activity (ortholog); INVOLVED IN activation of cysteine-type endopeptidase activity involved in apoptotic process (ortholog); apoptotic process (ortholog); branching involved in mammary gland duct morphogenesis (ortholog); PARTICIPATES IN mTOR signaling pathway; transforming growth factor-beta Smad dependent signaling pathway; ASSOCIATED WITH acute promyelocytic leukemia (ortholog); Bloom syndrome (ortholog); breast ductal carcinoma (ortholog); FOUND IN heterochromatin (ortholog); nuclear membrane (ortholog); nucleus (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: promyelocytic leukemia; promyelocytic leukemia, transcript variant X1; promyelocytic leukemia, transcript variant X2; promyelocytic leukemia, transcript variant X3; promyelocytic leukemia, transcript variant X4; promyelocytic leukemia, transcript variant X5
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640115,287,097 - 115,329,964 (+)NCBI
SpeTri2.0NW_00493647133,135,186 - 33,173,218 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
activation of cysteine-type endopeptidase activity involved in apoptotic process  (IEA,ISO)
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)
circadian regulation of gene expression  (IEA)
common-partner SMAD protein phosphorylation  (IEA,ISO)
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 interleukin-1 beta production  (IEA)
negative regulation of interleukin-1 production  (IEA)
negative regulation of mitotic cell cycle  (ISO)
negative regulation of telomerase activity  (ISO)
negative regulation of telomere maintenance via telomerase  (ISO)
negative regulation of transcription, DNA-templated  (IEA)
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 histone deacetylation  (ISO)
positive regulation of MHC class I biosynthetic process  (ISO)
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)
positive regulation of transcription by RNA polymerase II  (ISO)
proteasome-mediated ubiquitin-dependent protein catabolic process  (IEA)
protein import into nucleus  (IEA,ISO)
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 double-strand break repair  (IEA)
regulation of MHC class I biosynthetic process  (ISO)
regulation of transcription, DNA-templated  (IEA,ISO)
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)
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

Genomics

Comparative Map Data
Pml
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640115,287,097 - 115,329,964 (+)NCBI
SpeTri2.0NW_00493647133,135,186 - 33,173,218 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PML
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381573,994,716 - 74,047,827 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1573,994,673 - 74,047,827 (+)EnsemblGRCh38hg38GRCh38
GRCh371574,287,057 - 74,340,168 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361572,074,067 - 72,127,213 (+)NCBINCBI36hg18NCBI36
Build 341572,074,066 - 72,115,787NCBI
Celera1551,164,334 - 51,230,308 (+)NCBI
Cytogenetic Map15q24.1NCBI
HuRef1551,118,849 - 51,172,183 (+)NCBIHuRef
CHM1_11574,404,975 - 74,458,114 (+)NCBICHM1_1
Pml
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39958,124,462 - 58,157,077 (-)NCBIGRCm39mm39
GRCm39 Ensembl958,125,359 - 58,157,069 (-)Ensembl
GRCm38958,217,179 - 58,249,796 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl958,218,076 - 58,249,786 (-)EnsemblGRCm38mm10GRCm38
MGSCv37958,064,986 - 58,097,593 (-)NCBIGRCm37mm9NCBIm37
MGSCv36958,016,679 - 58,047,923 (-)NCBImm8
Celera955,451,359 - 55,484,054 (-)NCBICelera
Cytogenetic Map9BNCBI
cM Map931.63NCBI
Pml
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2858,627,347 - 58,661,927 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl858,628,837 - 58,658,971 (-)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 (-)NCBIRGSC3.4rn4RGSC3.4
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
PanPan1.11571,658,884 - 71,710,883 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1571,658,884 - 71,710,883 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01552,903,874 - 52,955,151 (+)NCBIMhudiblu_PPA_v0panPan3
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 (+)NCBI
ROS_Cfam_1.03037,439,424 - 37,485,481 (+)NCBI
ROS_Cfam_1.0 Ensembl3037,439,414 - 37,485,559 (+)Ensembl
UMICH_Zoey_3.13037,391,257 - 37,437,382 (+)NCBI
UNSW_CanFamBas_1.03037,417,163 - 37,463,467 (+)NCBI
UU_Cfam_GSD_1.03037,673,462 - 37,719,075 (+)NCBI
PML
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl759,405,048 - 59,450,150 (-)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 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl269,451,112 - 9,494,931 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666048132,120,299 - 132,175,245 (+)NCBIVero_WHO_p1.0
Pml
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624781464,858 - 498,146 (-)NCBIHetGla_female_1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: XM_005316784   ⟹   XP_005316841
RefSeq Status:
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024408640115,287,098 - 115,326,514 (+)NCBI
SpeTri2.0NW_00493647133,135,186 - 33,173,010 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013359716   ⟹   XP_013215170
RefSeq Status:
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024408640115,287,100 - 115,318,932 (+)NCBI
SpeTri2.0NW_00493647133,135,186 - 33,164,330 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013359720   ⟹   XP_013215174
RefSeq Status:
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024408640115,287,099 - 115,318,932 (+)NCBI
SpeTri2.0NW_00493647133,135,186 - 33,164,330 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013359723   ⟹   XP_013215177
RefSeq Status:
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024408640115,287,101 - 115,324,187 (+)NCBI
SpeTri2.0NW_00493647133,135,186 - 33,172,188 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021728229   ⟹   XP_021583904
RefSeq Status:
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024408640115,287,097 - 115,326,514 (+)NCBI
SpeTri2.0NW_00493647133,135,186 - 33,173,218 (+)NCBI
Sequence:
RefSeq Acc Id: XM_040273977   ⟹   XP_040129911
RefSeq Status:
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024408640115,287,098 - 115,329,964 (+)NCBI
RefSeq Acc Id: XM_040273978   ⟹   XP_040129912
RefSeq Status:
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024408640115,287,101 - 115,315,171 (+)NCBI
RefSeq Acc Id: XM_040273979   ⟹   XP_040129913
RefSeq Status:
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024408640115,287,101 - 115,315,124 (+)NCBI
Reference Sequences
RefSeq Acc Id: XP_005316841   ⟸   XM_005316784
- Peptide Label: isoform X1
- UniProtKB: I3MLB7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013215177   ⟸   XM_013359723
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_013215170   ⟸   XM_013359716
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_013215174   ⟸   XM_013359720
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_021583904   ⟸   XM_021728229
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_040129911   ⟸   XM_040273977
- Peptide Label: isoform X2
RefSeq Acc Id: XP_040129912   ⟸   XM_040273978
- Peptide Label: isoform X7
RefSeq Acc Id: XP_040129913   ⟸   XM_040273979
- Peptide Label: isoform X8
Protein Domains
B box-type   RING-type


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000013606 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSSTOP00000012192 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000013607 UniProtKB/TrEMBL
Gene3D-CATH 3.30.40.10 UniProtKB/TrEMBL
InterPro DUF3583 UniProtKB/TrEMBL
  Znf_B-box UniProtKB/TrEMBL
  Znf_RING UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/TrEMBL
  Znf_RING_CS UniProtKB/TrEMBL
NCBI Gene Pml ENTREZGENE
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
UniProt I3MLB7 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