Prm1 (protamine 1) - Rat Genome Database

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Gene: Prm1 (protamine 1) Rattus norvegicus
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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 male germ cell nucleus. 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 (+)NCBIGRCr8GRCr8GRCr8
mRatBN7.2104,871,817 - 4,872,312 (+)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx109,568,484 - 9,568,730 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0109,089,600 - 9,089,846 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0104,727,881 - 4,728,127 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0104,945,995 - 4,946,241 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl104,945,911 - 4,946,397 (+)Ensemblrn6Rnor6.0
Rnor_5.0103,772,481 - 3,772,727 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4104,808,354 - 4,808,600 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera103,893,505 - 3,893,751 (+)NCBICelera
Cytogenetic Map10q11NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
chromosome  (IEA)
cytosol  (ISO)
nucleoplasm  (ISO)
nucleosome  (IEA)
nucleus  (IEA,ISO)

Molecular Function

References

References - curated
# 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
Additional References at PubMed
PMID:1268226   PMID:1627265   PMID:2757789   PMID:3072011   PMID:8185929   PMID:8618919   PMID:8720108   PMID:10369260   PMID:11326282   PMID:12477932   PMID:14680821  


Genomics

Comparative Map Data
Prm1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8105,378,740 - 5,379,235 (+)NCBIGRCr8GRCr8GRCr8
mRatBN7.2104,871,817 - 4,872,312 (+)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx109,568,484 - 9,568,730 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0109,089,600 - 9,089,846 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0104,727,881 - 4,728,127 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0104,945,995 - 4,946,241 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl104,945,911 - 4,946,397 (+)Ensemblrn6Rnor6.0
Rnor_5.0103,772,481 - 3,772,727 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4104,808,354 - 4,808,600 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
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 (-)Ensemblhg38GRCh38
GRCh371611,374,698 - 11,375,187 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361611,282,194 - 11,282,693 (-)NCBIBuild 36Build 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 EnsemblGRCm39
GRCm381610,796,332 - 10,796,823 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1610,796,326 - 10,805,839 (-)Ensemblmm10GRCm38
MGSCv371610,796,425 - 10,796,916 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
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
PanPan1.1 Ensembl1611,444,606 - 11,445,119 (-)EnsemblpanPan2panpan1.1
PRM1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl331,861,087 - 31,861,510 (+)EnsemblsusScr11Sscrofa11.1
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

.
Variants in Prm1
2 total Variants
miRNA Target Status (No longer updated)

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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2293680Bss40Bone structure and strength QTL 405.660.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)10135730538Rat
7387235Uae41Urinary albumin excretion QTL 415.260.1874urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)10130004247Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1092219745922197Rat
2317754Glom25Glomerulus QTL 253.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)10210370847103708Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10125055464349221Rat
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)1015893911Rat
631828Alc5Alcohol consumption QTL 52.4consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)10117749933Rat
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138832698Rat


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
nervous system
renal system
reproductive system
respiratory system
3 7 9 27 34 28 16 13 16 2 66 34 17 9 41 12

Sequence


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 Sequences
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

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

Transcriptome

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

Promoters
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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1583873 AgrOrtholog
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


Nomenclature History
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

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