Pfn3 (profilin 3) - Rat Genome Database

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Gene: Pfn3 (profilin 3) Rattus norvegicus
Analyze
Symbol: Pfn3
Name: profilin 3
RGD ID: 1587838
Description: Predicted to enable actin binding activity. Predicted to be involved in positive regulation of actin filament bundle assembly and regulation of actin filament polymerization. Predicted to be located in cytoskeleton and nucleus. Predicted to be active in cytoplasm. Orthologous to human PFN3 (profilin 3); INTERACTS WITH 1-naphthyl isothiocyanate; 6-propyl-2-thiouracil; acrylamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC685936; profilin III; profilin-3; similar to profilin 3
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8179,222,729 - 9,223,256 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl179,222,719 - 9,223,249 (+)EnsemblGRCr8
mRatBN7.2179,217,595 - 9,218,122 (+)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx179,233,712 - 9,234,239 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01710,763,741 - 10,764,268 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0179,230,102 - 9,230,629 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0179,746,485 - 9,747,012 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl179,746,485 - 9,747,012 (+)Ensemblrn6Rnor6.0
Rnor_5.01711,855,665 - 11,856,192 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41715,261,648 - 15,262,175 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera179,296,102 - 9,296,629 (+)NCBICelera
Cytogenetic Map17p14NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IBA,IEA)
cytoskeleton  (IEA)
nucleus  (IEA)

Molecular Function

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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Pfn3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8179,222,729 - 9,223,256 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl179,222,719 - 9,223,249 (+)EnsemblGRCr8
mRatBN7.2179,217,595 - 9,218,122 (+)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx179,233,712 - 9,234,239 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01710,763,741 - 10,764,268 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0179,230,102 - 9,230,629 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0179,746,485 - 9,747,012 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl179,746,485 - 9,747,012 (+)Ensemblrn6Rnor6.0
Rnor_5.01711,855,665 - 11,856,192 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41715,261,648 - 15,262,175 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera179,296,102 - 9,296,629 (+)NCBICelera
Cytogenetic Map17p14NCBI
PFN3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385177,400,109 - 177,400,661 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl5177,400,109 - 177,400,661 (-)Ensemblhg38GRCh38
GRCh375176,827,110 - 176,827,662 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 365176,759,770 - 176,760,183 (-)NCBIBuild 36Build 36hg18NCBI36
Celera5171,673,817 - 171,674,346 (+)NCBICelera
Cytogenetic Map5q35.3NCBI
HuRef5171,747,535 - 171,748,064 (-)NCBIHuRef
CHM1_15176,260,156 - 176,260,685 (-)NCBICHM1_1
T2T-CHM13v2.05177,943,327 - 177,943,879 (-)NCBIT2T-CHM13v2.0
Pfn3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391355,562,501 - 55,563,045 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1355,562,501 - 55,563,045 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381355,414,688 - 55,415,232 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1355,414,688 - 55,415,232 (-)Ensemblmm10GRCm38
MGSCv371355,516,049 - 55,516,593 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361355,424,311 - 55,433,045 (-)NCBIMGSCv36mm8
Celera1356,468,811 - 56,469,355 (-)NCBICelera
Cytogenetic Map13B1NCBI
cM Map1330.06NCBI
Pfn3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495540829,642,186 - 29,642,993 (-)NCBIChiLan1.0ChiLan1.0
PFN3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v24172,484,293 - 172,484,845 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan15170,623,832 - 170,624,384 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v05172,701,579 - 172,702,237 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.15179,764,057 - 179,764,580 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5179,764,113 - 179,764,526 (-)EnsemblpanPan2panpan1.1
PFN3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1435,959,558 - 35,960,296 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha435,927,059 - 35,928,149 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0436,325,863 - 36,326,951 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl436,326,046 - 36,326,459 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1436,151,087 - 36,152,175 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0436,337,305 - 36,338,395 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0436,846,539 - 36,847,627 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Pfn3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213122,661,172 - 122,662,289 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365971,686,149 - 1,686,562 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365971,685,538 - 1,686,668 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PFN3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl280,546,048 - 80,546,497 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1280,545,495 - 80,546,524 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
PFN3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12379,412,093 - 79,412,840 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2379,412,147 - 79,412,560 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366607510,601,674 - 10,602,463 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pfn3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473312,684,911 - 12,685,324 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462473312,684,603 - 12,685,378 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Pfn3
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11473,735,889 - 73,736,624 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Pfn3
2 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:55
Count of miRNA genes:50
Interacting mature miRNAs:53
Transcripts:ENSRNOT00000072298
Prediction methods:Microtar, 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
1354581Bp247Blood pressure QTL 2474.5arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)17143999106Rat
2293664Bmd28Bone mineral density QTL 285.10.0001femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)17436005727233623Rat
1300123Bp194Blood pressure QTL 1942.82arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)17212084342054133Rat
1582224Epfw4Epididymal fat weight QTL 43.50.0058epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)17920650523859062Rat
1582225Bw67Body weight QTL 676.20.0001body mass (VT:0001259)body weight (CMO:0000012)17920650523859062Rat
2302377Scl61Serum cholesterol level QTL 614.36blood HDL cholesterol amount (VT:0000184)serum high density lipoprotein cholesterol level (CMO:0000361)17622199858177198Rat
1582226Bw64Body weight QTL 644.20.0017body mass (VT:0001259)body weight (CMO:0000012)17920650523859062Rat
10401807Kidm52Kidney mass QTL 52kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)17131706603Rat
10054088Scort28Serum corticosterone level QTL 282.040.0102blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17473353449733534Rat
1582208Kidm32Kidney mass QTL 323.90.0018kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)17920650523859062Rat
1549900Iddm20Insulin dependent diabetes mellitus QTL 203.7pancreas integrity trait (VT:0010560)percentage of study population developing diabetes mellitus during a period of time (CMO:0001114)17122181410Rat
1354613Kidm14Kidney mass QTL 146.2kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)17136045694Rat
2324619Coatc4Coat color QTL 40.001coat/hair pigmentation trait (VT:0010463)pigmented dorsal coat/hair area to total dorsal coat/hair area ratio (CMO:0001811)17121499218Rat
2303627Vencon8Ventilatory control QTL 80.001respiration trait (VT:0001943)tidal volume (CMO:0000222)17473353449733534Rat
1581553Pur14Proteinuria QTL 145.30.0001urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)17798524316523460Rat
70184BpQTLcluster14Blood pressure QTL cluster 143.38arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)17857434232199534Rat
1582258Bw76Body weight QTL 764.60.0005body mass (VT:0001259)body weight (CMO:0000012)17920650523859062Rat
631207Niddm41Non-insulin dependent diabetes mellitus QTL 41blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)17138037084Rat
1582199Insul5Insulin level QTL 53.40.0119blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)17920650523859062Rat
1354662Rf49Renal function QTL 492.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)17143999106Rat
2293648Bmd31Bone mineral density QTL 314.50.0001femur size trait (VT:1000369)femoral neck cortical cross-sectional area (CMO:0001702)17436005727233623Rat
1354658Spl8Serum phospholipid level QTL 83.8blood VLDL phospholipid amount (VT:0010507)blood very low density lipoprotein phospholipid level (CMO:0001571)17143999106Rat
1641902Colcr7Colorectal carcinoma resistance QTL 73.350.0044intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)17212084322087569Rat
1582241Bw70Body weight QTL 704.60.0003body mass (VT:0001259)body weight (CMO:0000012)17920650523859062Rat
1582245Bw73Body weight QTL 734.60.0004body mass (VT:0001259)body weight (CMO:0000012)17920650523859062Rat
9590316Scort21Serum corticosterone level QTL 214.750.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17122877318Rat

Markers in Region
RH144519  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2179,217,930 - 9,218,098 (+)MAPPERmRatBN7.2
Rnor_6.0179,746,821 - 9,746,988NCBIRnor6.0
Rnor_5.01711,856,001 - 11,856,168UniSTSRnor5.0
RGSC_v3.41715,261,984 - 15,262,151UniSTSRGSC3.4
Celera179,296,438 - 9,296,605UniSTS
RH 3.4 Map1780.1UniSTS
Cytogenetic Map17p14UniSTS
BE102123  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2179,215,294 - 9,215,468 (+)MAPPERmRatBN7.2
Rnor_6.0179,744,185 - 9,744,358NCBIRnor6.0
Rnor_5.01711,853,365 - 11,853,538UniSTSRnor5.0
RGSC_v3.41715,259,348 - 15,259,521UniSTSRGSC3.4
Celera179,293,802 - 9,293,975UniSTS
RH 3.4 Map1779.5UniSTS
Cytogenetic Map17p14UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
2 3 5 103 55 50 43 12 43 139 22 1 99 70 45 7 8 8

Sequence


Ensembl Acc Id: ENSRNOT00000072298   ⟹   ENSRNOP00000067371
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl179,746,485 - 9,747,012 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000147802   ⟹   ENSRNOP00000102002
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl179,222,719 - 9,223,249 (+)Ensembl
RefSeq Acc Id: NM_001109487   ⟹   NP_001102957
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8179,222,729 - 9,223,256 (+)NCBI
mRatBN7.2179,217,595 - 9,218,122 (+)NCBI
Rnor_6.0179,746,485 - 9,747,012 (+)NCBI
Rnor_5.01711,855,665 - 11,856,192 (+)NCBI
RGSC_v3.41715,261,648 - 15,262,175 (+)RGD
Celera179,296,102 - 9,296,629 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001102957 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL93988 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000102002
GenBank Protein M0RCP6 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001102957   ⟸   NM_001109487
- UniProtKB: M0RCP6 (UniProtKB/Swiss-Prot)
- Sequence:
Ensembl Acc Id: ENSRNOP00000067371   ⟸   ENSRNOT00000072298
Ensembl Acc Id: ENSRNOP00000102002   ⟸   ENSRNOT00000147802

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0RCP6-F1-model_v2 AlphaFold M0RCP6 1-137 view protein structure

Transcriptome

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

Promoters
RGD ID:13700307
Promoter ID:EPDNEW_R10830
Type:single initiation site
Name:Pfn3_1
Description:profilin 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_6.0179,746,469 - 9,746,529EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1587838 AgrOrtholog
BioCyc Gene G2FUF-10203 BioCyc
Ensembl Genes ENSRNOG00000047752 Ensembl
  ENSRNOG00000082948 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000147802 ENTREZGENE
Gene3D-CATH Dynein light chain 2a, cytoplasmic UniProtKB/Swiss-Prot
InterPro PFN UniProtKB/Swiss-Prot
  PFN UniProtKB/Swiss-Prot
  PFN_sf UniProtKB/Swiss-Prot
  Profilin1/2/3_vertebrate UniProtKB/Swiss-Prot
KEGG Report rno:685936 UniProtKB/Swiss-Prot
NCBI Gene 685936 ENTREZGENE
PANTHER PROFILIN UniProtKB/Swiss-Prot
  PTHR13936:SF2 UniProtKB/Swiss-Prot
Pfam Profilin UniProtKB/Swiss-Prot
PhenoGen Pfn3 PhenoGen
PRINTS PROFILINMAML UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000047752 RatGTEx
  ENSRNOG00000082948 RatGTEx
SMART PROF UniProtKB/Swiss-Prot
Superfamily-SCOP SSF55770 UniProtKB/Swiss-Prot
UniProt M0RCP6 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-05 Pfn3  profilin 3  LOC685936  similar to profilin 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED