Prm3 (protamine 3) - Rat Genome Database

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Gene: Prm3 (protamine 3) Rattus norvegicus
Analyze
Symbol: Prm3
Name: protamine 3
RGD ID: 1587265
Description: Predicted to enable DNA binding activity. Predicted to be involved in flagellated sperm motility. Predicted to be located in chromosome and nucleus. Predicted to be part of nucleosome. Predicted to be active in cytoplasm. Orthologous to human PRM3 (protamine 3); INTERACTS WITH 2,2',4,4'-Tetrabromodiphenyl ether; 3-chloropropane-1,2-diol; ammonium chloride.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: protamine-3; sperm protamine P3
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8105,384,394 - 5,384,908 (+)NCBIGRCr8GRCr8GRCr8
mRatBN7.2104,877,471 - 4,877,985 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl104,877,471 - 4,877,985 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx109,574,046 - 9,574,560 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0109,095,162 - 9,095,676 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0104,733,443 - 4,733,957 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0104,951,557 - 4,952,071 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl104,951,557 - 4,952,071 (+)Ensemblrn6Rnor6.0
Rnor_5.0103,778,043 - 3,778,557 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4104,814,767 - 4,815,281 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera103,899,067 - 3,899,581 (+)NCBICelera
Cytogenetic Map10q11NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
chromosome  (IEA)
cytoplasm  (IBA,ISO)
nucleosome  (IEA)
nucleus  (IEA)

Molecular Function
DNA binding  (IEA)

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. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8521723   PMID:8720108   PMID:18256328  


Genomics

Comparative Map Data
Prm3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8105,384,394 - 5,384,908 (+)NCBIGRCr8GRCr8GRCr8
mRatBN7.2104,877,471 - 4,877,985 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl104,877,471 - 4,877,985 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx109,574,046 - 9,574,560 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0109,095,162 - 9,095,676 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0104,733,443 - 4,733,957 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0104,951,557 - 4,952,071 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl104,951,557 - 4,952,071 (+)Ensemblrn6Rnor6.0
Rnor_5.0103,778,043 - 3,778,557 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4104,814,767 - 4,815,281 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera103,899,067 - 3,899,581 (+)NCBICelera
Cytogenetic Map10q11NCBI
PRM3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381611,273,199 - 11,273,629 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1611,273,199 - 11,273,629 (-)Ensemblhg38GRCh38
GRCh371611,367,056 - 11,367,486 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361611,273,850 - 11,274,953 (-)NCBIBuild 36Build 36hg18NCBI36
Build 341611,274,644 - 11,274,953NCBI
Celera1611,536,532 - 11,536,843 (-)NCBICelera
Cytogenetic Map16p13.13NCBI
HuRef1611,284,873 - 11,285,184 (-)NCBIHuRef
CHM1_11611,367,047 - 11,367,358 (-)NCBICHM1_1
T2T-CHM13v2.01611,309,421 - 11,309,851 (-)NCBIT2T-CHM13v2.0
Prm3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391610,608,372 - 10,608,778 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1610,608,369 - 10,608,778 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381610,790,508 - 10,790,914 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1610,790,505 - 10,790,914 (-)Ensemblmm10GRCm38
MGSCv371610,790,601 - 10,791,007 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361610,704,162 - 10,704,467 (-)NCBIMGSCv36mm8
Celera1611,417,938 - 11,418,344 (-)NCBICelera
Cytogenetic Map16A1NCBI
cM Map165.84NCBI
Prm3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554427,306,672 - 7,309,671 (+)Ensembl
ChiLan1.0NW_0049554427,308,621 - 7,309,105 (+)NCBIChiLan1.0ChiLan1.0
PRM3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21811,820,086 - 11,824,473 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11615,590,874 - 15,594,935 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01610,215,159 - 10,215,812 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11611,436,997 - 11,437,447 (-)NCBIPanPan1.1PanPan1.1panPan2
PRM3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1631,493,084 - 31,494,775 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha632,875,950 - 32,877,652 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0631,675,724 - 31,677,423 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
UMICH_Zoey_3.1631,489,021 - 31,490,709 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0631,363,314 - 31,364,995 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0631,787,543 - 31,789,245 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Prm3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344111,499,042 - 111,500,330 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365309,344,605 - 9,344,922 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365309,344,605 - 9,344,922 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PRM3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1331,865,159 - 31,866,717 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2332,655,879 - 32,656,364 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PRM3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1510,750,083 - 10,751,380 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl510,750,168 - 10,750,503 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366606819,413,430 - 19,413,991 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Prm3
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1911,564,622 - 11,565,123 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Prm3
8 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:59
Count of miRNA genes:55
Interacting mature miRNAs:56
Transcripts:ENSRNOT00000003451
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 (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

Markers in Region
RH94725  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2104,876,873 - 4,876,979 (+)MAPPERmRatBN7.2
Rnor_6.0104,950,960 - 4,951,065NCBIRnor6.0
Rnor_5.0103,777,446 - 3,777,551UniSTSRnor5.0
RGSC_v3.4104,814,168 - 4,814,273UniSTSRGSC3.4
Celera103,898,470 - 3,898,575UniSTS
Cytogenetic Map10q11UniSTS
RH94726  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2104,876,095 - 4,876,196 (+)MAPPERmRatBN7.2
Rnor_6.0104,950,182 - 4,950,282NCBIRnor6.0
Rnor_5.0103,776,668 - 3,776,768UniSTSRnor5.0
RGSC_v3.4104,813,390 - 4,813,490UniSTSRGSC3.4
Celera103,897,692 - 3,897,792UniSTS
Cytogenetic Map10q11UniSTS
UniSTS:498766  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2104,876,885 - 4,876,960 (+)MAPPERmRatBN7.2
Rnor_6.0104,950,972 - 4,951,046NCBIRnor6.0
Rnor_5.0103,777,458 - 3,777,532UniSTSRnor5.0
RGSC_v3.4104,814,180 - 4,814,254UniSTSRGSC3.4
Celera103,898,482 - 3,898,556UniSTS
Cytogenetic Map10q11UniSTS


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
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
2 7 3 28 20 22 8 7 8 6 38 20 4 14 3 24 14

Sequence


Ensembl Acc Id: ENSRNOT00000003451   ⟹   ENSRNOP00000003451
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl104,877,471 - 4,877,985 (+)Ensembl
Rnor_6.0 Ensembl104,951,557 - 4,952,071 (+)Ensembl
RefSeq Acc Id: NM_001002855   ⟹   NP_001002855
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8105,384,394 - 5,384,908 (+)NCBI
mRatBN7.2104,877,471 - 4,877,985 (+)NCBI
Rnor_6.0104,951,557 - 4,952,071 (+)NCBI
Rnor_5.0103,778,043 - 3,778,557 (+)NCBI
RGSC_v3.4104,814,767 - 4,815,281 (+)RGD
Celera103,899,067 - 3,899,581 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001002855 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAB35760 (Get FASTA)   NCBI Sequence Viewer  
  CAA87063 (Get FASTA)   NCBI Sequence Viewer  
  EDL96209 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000003451.2
GenBank Protein Q64256 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001002855   ⟸   NM_001002855
- UniProtKB: Q64256 (UniProtKB/Swiss-Prot),   A6K4I7 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000003451   ⟸   ENSRNOT00000003451

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q64256-F1-model_v2 AlphaFold Q64256 1-104 view protein structure

Transcriptome

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

Promoters
RGD ID:13696940
Promoter ID:EPDNEW_R7465
Type:initiation region
Name:Prm3_1
Description:protamine 3
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_6.0104,951,653 - 4,951,713EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1587265 AgrOrtholog
BioCyc Gene G2FUF-26144 BioCyc
Ensembl Genes ENSRNOG00000002564 Ensembl, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000003451.4 UniProtKB/Swiss-Prot
InterPro PRMP3 UniProtKB/Swiss-Prot
KEGG Report rno:442921 UniProtKB/Swiss-Prot
NCBI Gene 442921 ENTREZGENE
PANTHER PROTAMINE-3 UniProtKB/Swiss-Prot
  PTHR14317 UniProtKB/Swiss-Prot
PhenoGen Prm3 PhenoGen
RatGTEx ENSRNOG00000002564 RatGTEx
UniProt A6K4I7 ENTREZGENE, UniProtKB/TrEMBL
  PRM3_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2006-11-19 Prm3  protamine 3      Symbol and Name status set to provisional 70820 PROVISIONAL