Pfn4 (profilin family, member 4) - Rat Genome Database

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Gene: Pfn4 (profilin family, member 4) Rattus norvegicus
Analyze
Symbol: Pfn4
Name: profilin family, member 4
RGD ID: 1359707
Description: Predicted to enable actin monomer binding activity. Predicted to be involved in acrosome assembly; manchette assembly; and sperm flagellum assembly. Predicted to be located in cytoplasm. Predicted to be active in cell cortex. Orthologous to human PFN4 (profilin family member 4); INTERACTS WITH acrylamide; bisphenol A; thioacetamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: profilin IV; profilin-4
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
GRCr8633,506,077 - 33,516,163 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl633,506,077 - 33,516,163 (+)EnsemblGRCr8
mRatBN7.2627,786,619 - 27,796,710 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl627,786,619 - 27,796,710 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx628,078,875 - 28,088,958 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0628,394,789 - 28,404,862 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0627,869,330 - 27,879,417 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0630,027,915 - 30,038,000 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl630,027,915 - 30,038,000 (-)Ensemblrn6Rnor6.0
Rnor_5.0639,849,111 - 39,859,332 (+)NCBIRnor_5.0Rnor_5.0rn5
Celera627,256,362 - 27,266,443 (+)NCBICelera
Cytogenetic Map6q14NCBI
JBrowse:




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

Biological Process
acrosome assembly  (IEA,ISO,ISS)
cell differentiation  (IEA)
flagellated sperm motility  (IEA,ISO,ISS)
manchette assembly  (IEA,ISO,ISS)
sperm flagellum assembly  (IEA,ISO,ISS)
spermatogenesis  (IEA,ISO,ISS)

Cellular Component
cell cortex  (IBA)
cytoplasm  (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. Novel testis-expressed profilin IV associated with acrosome biogenesis and spermatid elongation. Obermann H, etal., Mol Hum Reprod 2005 Jan;11(1):53-64. Epub 2004 Dec 10.
3. GOA pipeline RGD automated data pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932  


Genomics

Comparative Map Data
Pfn4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8633,506,077 - 33,516,163 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl633,506,077 - 33,516,163 (+)EnsemblGRCr8
mRatBN7.2627,786,619 - 27,796,710 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl627,786,619 - 27,796,710 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx628,078,875 - 28,088,958 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0628,394,789 - 28,404,862 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0627,869,330 - 27,879,417 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0630,027,915 - 30,038,000 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl630,027,915 - 30,038,000 (-)Ensemblrn6Rnor6.0
Rnor_5.0639,849,111 - 39,859,332 (+)NCBIRnor_5.0Rnor_5.0rn5
Celera627,256,362 - 27,266,443 (+)NCBICelera
Cytogenetic Map6q14NCBI
PFN4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38224,114,809 - 24,123,491 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl224,114,637 - 24,123,734 (-)Ensemblhg38GRCh38
GRCh37224,337,679 - 24,346,204 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36224,191,745 - 24,199,655 (-)NCBIBuild 36Build 36hg18NCBI36
Build 34224,249,894 - 24,257,802NCBI
Celera224,178,574 - 24,186,481 (-)NCBICelera
Cytogenetic Map2p23.3NCBI
HuRef224,077,093 - 24,085,037 (-)NCBIHuRef
CHM1_1224,267,633 - 24,275,540 (-)NCBICHM1_1
T2T-CHM13v2.0224,149,512 - 24,158,188 (-)NCBIT2T-CHM13v2.0
Pfn4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39124,819,010 - 4,828,813 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl124,819,022 - 4,828,813 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38124,769,015 - 4,778,813 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl124,769,022 - 4,778,813 (+)Ensemblmm10GRCm38
MGSCv37124,776,101 - 4,785,072 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36124,786,316 - 4,795,287 (+)NCBIMGSCv36mm8
Celera124,701,135 - 4,710,105 (+)NCBICelera
Cytogenetic Map12A1.1NCBI
cM Map122.09NCBI
Pfn4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554696,299,451 - 6,307,176 (-)Ensembl
ChiLan1.0NW_0049554696,299,451 - 6,306,564 (-)NCBIChiLan1.0ChiLan1.0
PFN4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v212102,395,764 - 102,407,250 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12A102,399,787 - 102,411,214 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02A24,110,565 - 24,120,024 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12A24,209,163 - 24,217,262 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A24,209,163 - 24,217,262 (-)EnsemblpanPan2panpan1.1
PFN4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11718,571,201 - 18,579,593 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1718,573,445 - 18,578,818 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1718,469,095 - 18,477,470 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01718,847,785 - 18,853,756 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1718,742,935 - 18,853,529 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11718,582,464 - 18,590,843 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01718,590,900 - 18,599,290 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01718,631,691 - 18,640,075 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Pfn4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629262,947,391 - 62,951,384 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364937,888,968 - 7,892,000 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049364937,888,211 - 7,891,273 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PFN4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl3114,578,199 - 114,585,194 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.13114,578,264 - 114,585,194 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.23121,842,829 - 121,849,795 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PFN4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11483,530,834 - 83,538,704 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1483,531,482 - 83,540,305 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604528,629,446 - 28,637,592 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pfn4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247386,419,204 - 6,423,981 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247386,415,391 - 6,424,431 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Pfn4
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1725,423,589 - 25,434,287 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Pfn4
70 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:84
Count of miRNA genes:65
Interacting mature miRNAs:79
Transcripts:ENSRNOT00000074570
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
8552962Pigfal16Plasma insulin-like growth factor 1 level QTL 169.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)6197587946975879Rat
10401812Kidm54Kidney mass QTL 54kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)62009763565097635Rat
8552910Pigfal5Plasma insulin-like growth factor 1 level QTL 54.3blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)62265388967653889Rat
10401800Kidm49Kidney mass QTL 49kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)62009763565097635Rat
1300164Rf15Renal function QTL 153.12renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)6323998948239989Rat
1331779Rf38Renal function QTL 382.876kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)63118500276185002Rat
9589129Insul24Insulin level QTL 2419.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)6197587946975879Rat
7411603Foco13Food consumption QTL 135.50.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)6197587946975879Rat
1598843Cm63Cardiac mass QTL 632.6heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)6144788383Rat
7411542Bw127Body weight QTL 1275.50.001body mass (VT:0001259)body weight gain (CMO:0000420)6197587946975879Rat
2292616Ept15Estrogen-induced pituitary tumorigenesis QTL 154.4pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)6144788383Rat
9589048Scfw3Subcutaneous fat weight QTL 34.570.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)6197587946975879Rat
2293839Kiddil2Kidney dilation QTL 24.8kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62661831486868070Rat
1576309Emca7Estrogen-induced mammary cancer QTL 74mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)620859430113082285Rat
2301964Bp323Blood pressure QTL 3234.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)6186868070Rat
2293709Bss23Bone structure and strength QTL 235.180.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)6323998948239989Rat
2293650Bss31Bone structure and strength QTL 315.050.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)6323998948239989Rat
1578665Bss16Bone structure and strength QTL 164.4femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)63332884178328841Rat
2293841Kiddil4Kidney dilation QTL 44.4kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62661831486868070Rat
1300128Rf16Renal function QTL 163.89renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)6140163351Rat
1641898Colcr4Colorectal carcinoma resistance QTL43.710.0007intestine integrity trait (VT:0010554)well differentiated malignant colorectal tumor surface area measurement (CMO:0002077)63093763275937632Rat
1578668Bmd14Bone mineral density QTL 143.8femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)63332884178328841Rat
70199Coreg1Compensatory renal growth QTL 111.8kidney mass (VT:0002707)compensatory renal growth score (CMO:0001894)61459947363457687Rat
2301972Bp325Blood pressure QTL 3254.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)61608937261967788Rat
1358190Ept1Estrogen-induced pituitary tumorigenesis QTL 14.4pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)6144788383Rat
2293656Bss28Bone structure and strength QTL 286.790.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)6323998948239989Rat
1354664Slep2Serum leptin concentration QTL 24.49blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)62228825767288257Rat


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
sensory system
visual system
11 7 18 106 46 49 25 51 25 3 182 84 3 95 58 65 24 5 5

Sequence


Ensembl Acc Id: ENSRNOT00000074570   ⟹   ENSRNOP00000064666
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl633,506,077 - 33,516,163 (+)Ensembl
mRatBN7.2 Ensembl627,786,619 - 27,796,710 (+)Ensembl
Rnor_6.0 Ensembl630,027,915 - 30,038,000 (-)Ensembl
RefSeq Acc Id: NM_001009503   ⟹   NP_001009503
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8633,506,077 - 33,516,163 (+)NCBI
mRatBN7.2627,786,619 - 27,796,710 (+)NCBI
Rnor_6.0630,027,915 - 30,038,000 (-)NCBI
Rnor_5.0639,849,111 - 39,859,332 (+)NCBI
Celera627,256,362 - 27,266,443 (+)RGD
Sequence:
RefSeq Acc Id: XM_039112671   ⟹   XP_038968599
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8633,506,096 - 33,515,702 (+)NCBI
mRatBN7.2627,786,638 - 27,796,249 (+)NCBI
RefSeq Acc Id: XM_039112672   ⟹   XP_038968600
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8633,506,096 - 33,515,702 (+)NCBI
mRatBN7.2627,786,638 - 27,796,249 (+)NCBI
RefSeq Acc Id: NP_001009503   ⟸   NM_001009503
- UniProtKB: Q5IRJ7 (UniProtKB/Swiss-Prot),   A6HAJ2 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000064666   ⟸   ENSRNOT00000074570
RefSeq Acc Id: XP_038968599   ⟸   XM_039112671
- Peptide Label: isoform X1
- UniProtKB: Q5IRJ7 (UniProtKB/Swiss-Prot),   A6HAJ2 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038968600   ⟸   XM_039112672
- Peptide Label: isoform X1
- UniProtKB: Q5IRJ7 (UniProtKB/Swiss-Prot),   A6HAJ2 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5IRJ7-F1-model_v2 AlphaFold Q5IRJ7 1-129 view protein structure

Transcriptome

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

Promoters
RGD ID:13694480
Promoter ID:EPDNEW_R5003
Type:single initiation site
Name:Pfn4_1
Description:profilin family, member 4
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_6.0630,038,006 - 30,038,066EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1359707 AgrOrtholog
BioCyc Gene G2FUF-38266 BioCyc
Ensembl Genes ENSRNOG00000050386 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000074570 ENTREZGENE
  ENSRNOT00000074570.2 UniProtKB/Swiss-Prot
Gene3D-CATH Dynein light chain 2a, cytoplasmic UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7453892 IMAGE-MGC_LOAD
InterPro PFN UniProtKB/Swiss-Prot
  PFN UniProtKB/Swiss-Prot
  PFN_sf UniProtKB/Swiss-Prot
KEGG Report rno:494222 UniProtKB/Swiss-Prot
MGC_CLONE MGC:124913 IMAGE-MGC_LOAD
NCBI Gene 494222 ENTREZGENE
PANTHER PROFILIN-4 UniProtKB/Swiss-Prot
  PTHR11604 UniProtKB/Swiss-Prot
Pfam Profilin UniProtKB/Swiss-Prot
PhenoGen Pfn4 PhenoGen
RatGTEx ENSRNOG00000050386 RatGTEx
SMART PROF UniProtKB/Swiss-Prot
Superfamily-SCOP SSF55770 UniProtKB/Swiss-Prot
UniProt A6HAJ2 ENTREZGENE, UniProtKB/TrEMBL
  PROF4_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-11-17 Pfn4  profilin family, member 4      Symbol and Name status set to approved 1299863 APPROVED
2005-07-29 Pfn4  profilin family, member 4      Symbol and Name status set to provisional 70820 PROVISIONAL