Prm1 (protamine 1) - Rat Genome Database

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Gene: Prm1 (protamine 1) Rattus norvegicus
Analyze
Symbol: Prm1
Name: protamine 1
RGD ID: 1583873
Description: Predicted to enable DNA binding activity. Predicted to be involved in chromosome condensation and sperm DNA condensation. Predicted to act upstream of or within nucleus organization and spermatid development. Predicted to be located in cytosol; male germ cell nucleus; and nucleoplasm. Predicted to be part of nucleosome. Orthologous to human PRM1 (protamine 1); INTERACTS WITH 2,2',4,4'-Tetrabromodiphenyl ether; 2,2',5,5'-tetrachlorobiphenyl; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: cysteine-rich protamine; Prm1_mapped; protamine 1 (mapped); protamine P1; sperm protamine P1; sperm protamine-P1
RGD Orthologs
Human
Mouse
Bonobo
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8105,378,740 - 5,379,235 (+)NCBIGRCr8
mRatBN7.2104,871,817 - 4,872,312 (+)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx109,568,484 - 9,568,730 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0109,089,600 - 9,089,846 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0104,727,881 - 4,728,127 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0104,945,995 - 4,946,241 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl104,945,911 - 4,946,397 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0103,772,481 - 3,772,727 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4104,808,354 - 4,808,600 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera103,893,505 - 3,893,751 (+)NCBICelera
Cytogenetic Map10q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Prm1RatCharcot-Marie-Tooth disease type 1C  ISOPRM1 (Homo sapiens)8554872ClinVar Annotator: match by term: Charcot-Marie-Tooth disease type 1CClinVarPMID:28492532
Prm1RatLandau-Kleffner syndrome  ISOPRM1 (Homo sapiens)8554872ClinVar Annotator: match by term: Landau-Kleffner syndromeClinVarPMID:28492532
Prm1RatMHC class II deficiency  ISOPRM1 (Homo sapiens)8554872ClinVar Annotator: match by term: MHC class II deficiencyClinVarPMID:26271388 more ...

1 to 20 of 44 rows

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Prm1Rat17alpha-ethynylestradiol multiple interactionsISOPrm1 (Mus musculus)6480464[Ibuprofen co-treated with hydroxyibuprofen co-treated with Diclofenac co-treated with Ethinyl Estradiol] results in decreased expression of PRM1 mRNACTDPMID:37844793
Prm1Rat2,2',4,4',5,5'-hexachlorobiphenyl multiple interactionsISOPrm1 (Mus musculus)6480464[2 more ...CTDPMID:25510870
Prm1Rat2,2',4,4'-Tetrabromodiphenyl ether decreases expressionEXP 64804642 more ...CTDPMID:28712647
Prm1Rat2,2',5,5'-tetrachlorobiphenyl increases expressionEXP 64804642 more ...CTDPMID:23829299
Prm1Rat2,2',5,5'-tetrachlorobiphenyl multiple interactionsISOPrm1 (Mus musculus)6480464[2 more ...CTDPMID:25510870
Prm1Rat2,3,7,8-tetrachlorodibenzodioxine decreases expressionISOPRM1 (Homo sapiens)6480464Tetrachlorodibenzodioxin results in decreased expression of PRM1 mRNACTDPMID:21296121
Prm1Rat4-hydroxyphenyl retinamide decreases expressionISOPrm1 (Mus musculus)6480464Fenretinide results in decreased expression of PRM1 mRNACTDPMID:16467112
Prm1Rat6-propyl-2-thiouracil decreases expressionEXP 6480464Propylthiouracil results in decreased expression of PRM1 mRNACTDPMID:30047161
Prm1Ratall-trans-retinoic acid increases expressionISOPrm1 (Mus musculus)6480464Tretinoin results in increased expression of PRM1 mRNACTDPMID:18425777
Prm1Ratall-trans-retinol decreases expressionISOPrm1 (Mus musculus)6480464Vitamin A results in decreased expression of PRM1 mRNACTDPMID:30944279
Prm1Ratallethrin multiple interactionsEXP 6480464[Allethrins co-treated with cyhalothrin co-treated with cypermethrin co-treated with decamethrin co-treated with fenvalerate] results in decreased expression of PRM1 mRNA more ...CTDPMID:33051911 more ...
Prm1Ratamitrole decreases expressionEXP 6480464Amitrole results in decreased expression of PRM1 mRNACTDPMID:30047161
Prm1Ratammonium chloride affects expressionEXP 6480464Ammonium Chloride affects the expression of PRM1 mRNACTDPMID:16483693
Prm1RatAroclor 1254 increases expressionISOPrm1 (Mus musculus)6480464Chlorodiphenyl (54% Chlorine) results in increased expression of PRM1 mRNACTDPMID:23650126
Prm1Ratbis(2-ethylhexyl) phthalate decreases expressionISOPrm1 (Mus musculus)6480464Diethylhexyl Phthalate results in decreased expression of PRM1 mRNACTDPMID:32619501
Prm1Ratbisphenol A decreases expressionISOPrm1 (Mus musculus)6480464bisphenol A results in decreased expression of PRM1 mRNACTDPMID:23798566
Prm1Ratbisphenol A decreases methylationISOPRM1 (Homo sapiens)6480464bisphenol A results in decreased methylation of PRM1 geneCTDPMID:31601247
Prm1Ratbisphenol A decreases expressionEXP 6480464bisphenol A results in decreased expression of PRM1 mRNACTDPMID:25181051
Prm1Ratcadmium dichloride decreases methylationEXP 6480464Cadmium Chloride results in decreased methylation of PRM1 promoterCTDPMID:22457795
Prm1Ratcarbon nanotube increases expressionISOPrm1 (Mus musculus)6480464Nanotubes more ...CTDPMID:25554681

1 to 20 of 44 rows

Biological Process

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Prm1Ratcell differentiation involved_inIEAUniProtKB-KW:KW-02211600115GO_REF:0000043UniProtGO_REF:0000043
Prm1Ratchromosome condensation involved_inIEAUniProtKB-KW:KW-02261600115GO_REF:0000043UniProtGO_REF:0000043
Prm1Ratnucleus organization acts_upstream_of_or_withinISOPrm1 (Mus musculus)1624291MGI:3039794 PMID:11326282RGDPMID:11326282
Prm1Ratsperm DNA condensation involved_inIEAInterPro:IPR0002211600115GO_REF:0000002InterProGO_REF:0000002
Prm1Ratspermatid development acts_upstream_of_or_withinISOPrm1 (Mus musculus)1624291MGI:3039794 PMID:11326282RGDPMID:11326282
Prm1Ratspermatogenesis involved_inIEAUniProtKB-KW:KW-07441600115GO_REF:0000043UniProtGO_REF:0000043
Prm1Ratspermatogenesis involved_inIEAInterPro:IPR0002211600115GO_REF:0000002InterProGO_REF:0000002

Cellular Component
1 to 13 of 13 rows

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Prm1Ratchromosome located_inIEAUniProtKB-KW:KW-01581600115GO_REF:0000043UniProtGO_REF:0000043
Prm1Ratchromosome located_inIEAUniProtKB-SubCell:SL-04681600115GO_REF:0000044UniProtGO_REF:0000044
Prm1Ratcytoplasm NOT|located_inISOPrm1 (Mus musculus)1624291 PMID:8185929RGDPMID:8185929
Prm1Ratcytosol located_inISOPRM1 (Homo sapiens)1624291 RGDGO_REF:0000052
Prm1Ratmale germ cell nucleus located_inISOPrm1 (Mus musculus)1624291 PMID:14680821 and PMID:8618919RGDPMID:14680821 and PMID:8618919
Prm1Ratnucleoplasm located_inISOPRM1 (Homo sapiens)1624291 RGDGO_REF:0000052
Prm1Ratnucleosome part_ofIEAUniProtKB-KW:KW-05441600115GO_REF:0000043UniProtGO_REF:0000043
Prm1Ratnucleosome part_ofIEAInterPro:IPR0002211600115GO_REF:0000002InterProGO_REF:0000002
Prm1Ratnucleus located_inISOPRM1 (Sus scrofa)1624291 PMID:1627265RGDPMID:1627265
Prm1Ratnucleus located_inIEAUniProtKB-SubCell:SL-01911600115GO_REF:0000044UniProtGO_REF:0000044
Prm1Ratnucleus located_inIEAUniProtKB-KW:KW-05391600115GO_REF:0000043UniProtGO_REF:0000043
Prm1Ratnucleus located_inISOPrm1 (Mus musculus)1624291 PMID:10369260 and PMID:8185929RGDPMID:10369260 and PMID:8185929
Prm1Ratnucleus located_inIEAInterPro:IPR0002211600115GO_REF:0000002InterProGO_REF:0000002
1 to 13 of 13 rows

Molecular Function

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Prm1RatDNA binding enablesIEAUniProtKB-KW:KW-02381600115GO_REF:0000043UniProtGO_REF:0000043
Prm1RatDNA binding enablesIEAInterPro:IPR0002211600115GO_REF:0000002InterProGO_REF:0000002
Prm1Ratprotein binding enablesISOPRM1 (Homo sapiens)1624291UniProtKB:P49760 and PMID:32296183RGDPMID:32296183


#
Reference Title
Reference Citation
1. GOA pipeline RGD automated data pipeline
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
PMID:1268226   PMID:1627265   PMID:2757789   PMID:3072011   PMID:8185929   PMID:8618919   PMID:8720108   PMID:10369260   PMID:11326282   PMID:12477932   PMID:14680821  



Prm1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8105,378,740 - 5,379,235 (+)NCBIGRCr8
mRatBN7.2104,871,817 - 4,872,312 (+)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx109,568,484 - 9,568,730 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0109,089,600 - 9,089,846 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0104,727,881 - 4,728,127 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0104,945,995 - 4,946,241 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl104,945,911 - 4,946,397 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0103,772,481 - 3,772,727 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4104,808,354 - 4,808,600 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera103,893,505 - 3,893,751 (+)NCBICelera
Cytogenetic Map10q11NCBI
PRM1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381611,280,841 - 11,281,330 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1611,280,841 - 11,281,330 (-)EnsemblGRCh38hg38GRCh38
GRCh371611,374,698 - 11,375,187 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361611,282,194 - 11,282,693 (-)NCBINCBI36Build 36hg18NCBI36
Build 341611,282,199 - 11,282,685NCBI
Celera1611,544,077 - 11,544,576 (-)NCBICelera
Cytogenetic Map16p13.13NCBI
HuRef1611,292,416 - 11,292,915 (-)NCBIHuRef
CHM1_11611,374,599 - 11,375,098 (-)NCBICHM1_1
T2T-CHM13v2.01611,317,056 - 11,317,545 (-)NCBIT2T-CHM13v2.0
Prm1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391610,614,196 - 10,614,687 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1610,614,190 - 10,623,703 (-)EnsemblGRCm39 Ensembl
GRCm381610,796,332 - 10,796,823 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1610,796,326 - 10,805,839 (-)EnsemblGRCm38mm10GRCm38
MGSCv371610,796,425 - 10,796,916 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361610,709,910 - 10,710,401 (-)NCBIMGSCv36mm8
Celera1611,423,762 - 11,424,253 (-)NCBICelera
Cytogenetic Map16A1NCBI
cM Map165.87NCBI
PRM1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21811,829,110 - 11,831,298 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11615,599,576 - 15,601,748 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01610,222,779 - 10,223,289 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11611,444,606 - 11,445,114 (-)NCBIpanpan1.1PanPan1.1panPan2
PRM1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl331,861,087 - 31,861,510 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1331,861,087 - 31,861,529 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2332,650,583 - 32,651,026 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PRM1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1510,758,057 - 10,758,574 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366606819,405,264 - 19,405,904 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0

.

.
Variants in Prm1
1 total Variants

Predicted Target Of
Summary Value
Count of predictions:31
Count of miRNA genes:29
Interacting mature miRNAs:31
Transcripts:ENSRNOT00000003420
Prediction methods: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.


1 to 10 of 10 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
634329Pia15Pristane induced arthritis QTL 153.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10124158324Rat
2293680Bss40Bone structure and strength QTL 405.660.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)10135225947Rat
7387235Uae41Urinary albumin excretion QTL 415.260.1874urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)10129497586Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1041834445418344Rat
1576304Schws7Schwannoma susceptibility QTL 70.0115nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)10476552719816042Rat
7411611Foco17Food consumption QTL 1718.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)10142315980Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1074336463851208Rat
1549898Neuinf3Neuroinflammation QTL 326.4nervous system integrity trait (VT:0010566)MHC Class II RT1A-positive spinal cord ventral horn area to total spinal cord ventral horn area ratio (CMO:0001980)1034063205387112Rat
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138328221Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10180676123Rat

1 to 10 of 10 rows



alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
3 7 8 27 34 28 16 13 16 2 65 33 17 9 31 12



Ensembl Acc Id: ENSRNOT00000003420   ⟹   ENSRNOP00000003420
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl104,945,911 - 4,946,397 (+)Ensembl
RefSeq Acc Id: NM_001002850   ⟹   NP_001002850
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8105,378,740 - 5,379,235 (+)NCBI
mRatBN7.2104,871,817 - 4,872,312 (+)NCBI
Rnor_6.0104,945,995 - 4,946,241 (+)NCBI
Rnor_5.0103,772,481 - 3,772,727 (+)NCBI
RGSC_v3.4104,808,354 - 4,808,600 (+)RGD
Celera103,893,505 - 3,893,751 (+)RGD
Sequence:
Protein RefSeqs NP_001002850 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI26071 (Get FASTA)   NCBI Sequence Viewer  
  CAA78132 (Get FASTA)   NCBI Sequence Viewer  
  CAA87061 (Get FASTA)   NCBI Sequence Viewer  
  EDL96207 (Get FASTA)   NCBI Sequence Viewer  
  P10118 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001002850   ⟸   NM_001002850
- UniProtKB: A0JN03 (UniProtKB/Swiss-Prot),   P10118 (UniProtKB/Swiss-Prot),   A6K4I5 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000003420   ⟸   ENSRNOT00000003420

Name Modeler Protein Id AA Range Protein Structure
AF-P10118-F1-model_v2 AlphaFold P10118 1-51 view protein structure


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

RGD ID:13696939
Promoter ID:EPDNEW_R7464
Type:single initiation site
Name:Prm1_1
Description:protamine 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_6.0104,945,903 - 4,945,963EPDNEW


1 to 15 of 15 rows
Database
Acc Id
Source(s)
BioCyc Gene G2FUF-26146 BioCyc
Ensembl Genes ENSRNOG00000002532 Ensembl
IMAGE_CLONE IMAGE:7134211 IMAGE-MGC_LOAD
InterPro Protamine_P1 UniProtKB/Swiss-Prot
KEGG Report rno:24685 UniProtKB/Swiss-Prot
MGC_CLONE MGC:156539 IMAGE-MGC_LOAD
NCBI Gene 24685 ENTREZGENE
Pfam Protamine_P1 UniProtKB/Swiss-Prot
PhenoGen Prm1 PhenoGen
PROSITE PROTAMINE_P1 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000002532 RatGTEx
UniProt A0JN03 ENTREZGENE
  A6K4I5 ENTREZGENE, UniProtKB/TrEMBL
  HSP1_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary A0JN03 UniProtKB/Swiss-Prot
1 to 15 of 15 rows


Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2007-04-13   protamine 1  Prm1  protamine 1 (mapped)  Name updated 737654 APPROVED
2007-04-12 Prm1  protamine 1 (mapped)  Prm1_mapped  protamine 1 (mapped)  Data merged from RGD:3408 737654 APPROVED
2006-11-19 Prm1  protamine 1 (mapped)      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-11-17 Prm1_mapped  protamine 1 (mapped)  Prm1  protamine 1  Symbol and Name updated 1556543 APPROVED
2002-06-10 Prm1  Protamine 1      Symbol and Name status set to approved 70586 APPROVED

Note Type Note Reference
gene_expression expressed in the central layers of the testis tubuli seminiferi in sexually mature rats 1334512