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
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8179,222,729 - 9,223,256 (+)NCBIGRCr8
mRatBN7.2179,217,595 - 9,218,122 (+)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx179,233,712 - 9,234,239 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01710,763,741 - 10,764,268 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0179,230,102 - 9,230,629 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0179,746,485 - 9,747,012 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl179,746,485 - 9,747,012 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01711,855,665 - 11,856,192 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41715,261,648 - 15,262,175 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera179,296,102 - 9,296,629 (+)NCBICelera
Cytogenetic Map17p14NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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)
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 (+)NCBIGRCr8
mRatBN7.2179,217,595 - 9,218,122 (+)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx179,233,712 - 9,234,239 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01710,763,741 - 10,764,268 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0179,230,102 - 9,230,629 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0179,746,485 - 9,747,012 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl179,746,485 - 9,747,012 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01711,855,665 - 11,856,192 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41715,261,648 - 15,262,175 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
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 (-)EnsemblGRCh38hg38GRCh38
GRCh375176,827,110 - 176,827,662 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 365176,759,770 - 176,760,183 (-)NCBINCBI36Build 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 Ensembl
GRCm381355,414,688 - 55,415,232 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1355,414,688 - 55,415,232 (-)EnsemblGRCm38mm10GRCm38
MGSCv371355,516,049 - 55,516,593 (-)NCBIGRCm37MGSCv37mm9NCBIm37
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 (-)Ensemblpanpan1.1panPan2
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_Tasha
ROS_Cfam_1.0436,325,863 - 36,326,951 (+)NCBIROS_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_1.0
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 (-)EnsemblSpeTri2.0SpeTri2.0 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 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
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 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
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_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473312,684,603 - 12,685,378 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

miRNA Target Status

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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
9590316Scort21Serum corticosterone level QTL 214.750.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17122871563Rat
10401807Kidm52Kidney mass QTL 52kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)17131701463Rat
70184BpQTLcluster14Blood pressure QTL cluster 143.38arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)17131990913Rat
631207Niddm41Non-insulin dependent diabetes mellitus QTL 41blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)17137830672Rat
1354658Spl8Serum phospholipid level QTL 83.8blood VLDL phospholipid amount (VT:0010507)blood very low density lipoprotein phospholipid level (CMO:0001571)17160781592Rat
1354581Bp247Blood pressure QTL 2474.5arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)17169599340Rat
1354662Rf49Renal function QTL 492.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)17169599340Rat
1641902Colcr7Colorectal carcinoma resistance QTL 73.350.0044intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)17211514921881669Rat
1300123Bp194Blood pressure QTL 1942.82arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)17211514934551001Rat
631499Stl1Serum triglyceride level QTL 13.6blood triglyceride amount (VT:0002644)blood triglyceride level (CMO:0000118)17327139827389946Rat
2324619Coatc4Coat color QTL 40.001coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)17429913021293263Rat
2324619Coatc4Coat color QTL 40.001coat/hair pigmentation trait (VT:0010463)pigmented dorsal coat/hair area to total dorsal coat/hair area ratio (CMO:0001811)17429913021293263Rat
1354613Kidm14Kidney mass QTL 146.2kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)17429913035837242Rat
1354596Bw32Body weight QTL 324.5body mass (VT:0001259)body weight (CMO:0000012)17429913060781592Rat
1354630Cm34Cardiac mass QTL 348.7heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)17429913069599340Rat
1354638Insul1Insulin level QTL 14.8blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)17429913069599340Rat
1354651Lmblg2Limb length QTL 26tibia length (VT:0004357)tibia length (CMO:0000450)17429913069599340Rat
2293648Bmd31Bone mineral density QTL 314.50.0001femur size trait (VT:1000369)femoral neck cortical cross-sectional area (CMO:0001702)17435448727028127Rat
2293664Bmd28Bone mineral density QTL 285.10.0001femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)17435448727028127Rat
2303627Vencon8Ventilatory control QTL 80.001respiration trait (VT:0001943)tidal volume (CMO:0000222)17452803849528038Rat
10054088Scort28Serum corticosterone level QTL 282.040.0102blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17452803849528038Rat
1581553Pur14Proteinuria QTL 145.30.0001urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)17797996816317111Rat
2303561Bw91Body weight QTL 912body mass (VT:0001259)body weight (CMO:0000012)17886846253868462Rat
1582199Insul5Insulin level QTL 53.40.0119blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)17920136523653323Rat
1582208Kidm32Kidney mass QTL 323.90.0018kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)17920136523653323Rat
1582224Epfw4Epididymal fat weight QTL 43.50.0058epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)17920136523653323Rat
1582225Bw67Body weight QTL 676.20.0001body mass (VT:0001259)body weight (CMO:0000012)17920136523653323Rat
1582226Bw64Body weight QTL 644.20.0017body mass (VT:0001259)body weight (CMO:0000012)17920136523653323Rat
1582241Bw70Body weight QTL 704.60.0003body mass (VT:0001259)body weight (CMO:0000012)17920136523653323Rat
1582245Bw73Body weight QTL 734.60.0004body mass (VT:0001259)body weight (CMO:0000012)17920136523653323Rat
1582258Bw76Body weight QTL 764.60.0005body mass (VT:0001259)body weight (CMO:0000012)17920136523653323Rat

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
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 11 7
Low 6 6 6 56 3
Below cutoff 3 31 23 6 23 2 3 16 14 13 2 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000072298   ⟹   ENSRNOP00000067371
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl179,746,485 - 9,747,012 (+)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 ENSRNOP00055021835
  ENSRNOP00060034048
  ENSRNOP00065036281
GenBank Protein M0RCP6 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: NP_001102957   ⟸   NM_001109487
- UniProtKB: M0RCP6 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000067371   ⟸   ENSRNOT00000072298

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
  ENSRNOG00055015904 UniProtKB/Swiss-Prot
  ENSRNOG00060023763 UniProtKB/Swiss-Prot
  ENSRNOG00065025657 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00055027043 UniProtKB/Swiss-Prot
  ENSRNOT00060041118 UniProtKB/Swiss-Prot
  ENSRNOT00065044200 UniProtKB/Swiss-Prot
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
  ENSRNOG00055015904 RatGTEx
  ENSRNOG00060023763 RatGTEx
  ENSRNOG00065025657 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