Actn4 (actinin alpha 4) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Actn4 (actinin alpha 4) Rattus norvegicus
Analyze
Symbol: Actn4
Name: actinin alpha 4
RGD ID: 61816
Description: Enables ubiquitin protein ligase binding activity. A structural constituent of postsynaptic actin cytoskeleton. Involved in regulation of apoptotic process and response to hypoxia. Located in neuron projection and stress fiber. Part of protein-containing complex. Is active in glutamatergic synapse and postsynaptic actin cytoskeleton. Human ortholog(s) of this gene implicated in focal segmental glomerulosclerosis and focal segmental glomerulosclerosis 1. Orthologous to human ACTN4 (actinin alpha 4); PARTICIPATES IN platelet-derived growth factor signaling pathway; arrhythmogenic right ventricular cardiomyopathy pathway; Entamoebiasis pathway; INTERACTS WITH 2,2,2-tetramine; 2,3,7,8-tetrachlorodibenzodioxine; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: alpha actinin 4; alpha actinin 4 between D1Rat178 and D1Rat97; alpha-actinin-4; F-actin cross-linking protein; non-muscle alpha-actinin 4
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8193,310,294 - 93,379,369 (-)NCBIGRCr8
mRatBN7.2184,182,783 - 84,251,867 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl184,182,788 - 84,251,847 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx189,592,702 - 89,661,646 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0198,051,807 - 98,120,960 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0191,348,565 - 91,417,509 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0187,078,012 - 87,147,347 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl187,078,020 - 87,147,333 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0188,258,630 - 88,327,965 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4184,000,723 - 84,073,767 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1184,079,711 - 84,151,876 (-)NCBI
Celera178,572,890 - 78,641,919 (-)NCBICelera
Cytogenetic Map1q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(1->4)-beta-D-glucan  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,2,2-tetramine  (EXP)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (ISO)
2,6-dinitrotoluene  (EXP)
2-methylcholine  (ISO)
2-nitrotoluene  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3-chloropropane-1,2-diol  (EXP)
4,4'-sulfonyldiphenol  (EXP,ISO)
4-hydroxynon-2-enal  (ISO)
7,12-dimethyltetraphene  (EXP)
aflatoxin B1  (ISO)
Aflatoxin B2 alpha  (ISO)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
aristolochic acid A  (ISO)
arsenite(3-)  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
Bisphenol B  (ISO)
bisphenol F  (EXP)
bleomycin A2  (EXP)
bromobenzene  (EXP)
bromochloroacetic acid  (EXP)
butan-1-ol  (ISO)
C60 fullerene  (EXP)
caffeine  (ISO)
carbonyl sulfide  (EXP)
carvedilol  (EXP)
CGP 52608  (ISO)
chlordecone  (ISO)
chloropicrin  (ISO)
chlorpyrifos  (ISO)
cobalt dichloride  (ISO)
crocidolite asbestos  (ISO)
CU-O LINKAGE  (ISO)
cyclosporin A  (ISO)
dibutyl phthalate  (ISO)
diuron  (ISO)
doxorubicin  (EXP,ISO)
elemental selenium  (ISO)
endosulfan  (EXP)
enzyme inhibitor  (ISO)
epoxiconazole  (ISO)
ethanol  (EXP)
fenthion  (ISO)
finasteride  (EXP)
flavonoids  (EXP)
FR900359  (ISO)
fulvestrant  (ISO)
gentamycin  (EXP)
hydrazine  (ISO)
inulin  (ISO)
ivermectin  (ISO)
lead diacetate  (ISO)
lead(0)  (ISO)
Mesaconitine  (EXP)
methidathion  (ISO)
methoxychlor  (EXP)
N-ethyl-N-nitrosourea  (EXP)
N-nitrosomorpholine  (EXP)
paracetamol  (ISO)
perfluorohexanesulfonic acid  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
PhIP  (EXP)
pirinixic acid  (ISO)
prostaglandin A1  (ISO)
quercitrin  (ISO)
resveratrol  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
silicon dioxide  (ISO)
simvastatin  (ISO)
sodium arsenite  (ISO)
streptozocin  (EXP)
sunitinib  (ISO)
temozolomide  (ISO)
testosterone  (ISO)
thapsigargin  (EXP)
triphenyl phosphate  (ISO)
triptonide  (ISO)
tungsten  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vitamin E  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. Actin cytoskeleton regulates extracellular matrix-dependent survival signals in glomerular epithelial cells. Bijian K, etal., Am J Physiol Renal Physiol. 2005 Dec;289(6):F1313-23. Epub 2005 Jul 12.
2. BERP, a novel ring finger protein, binds to alpha-actinin-4. El-Husseini AE, etal., Biochem Biophys Res Commun 2000 Jan 27;267(3):906-11.
3. Insulin-dependent interactions of proteins with GLUT4 revealed through stable isotope labeling by amino acids in cell culture (SILAC). Foster LJ, etal., J Proteome Res. 2006 Jan;5(1):64-75.
4. 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.
5. Astrocyte growth, reactivity, and the target of the antiproliferative antibody, TAPA. Geisert EE Jr, etal., J Neurosci 1996 Sep 1;16(17):5478-87.
6. A novel cell adhesion molecule, G-CAM, found on cultured rat glia. Geisert EE Jr, etal., Neurosci Lett 1991 Dec 9;133(2):262-6.
7. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
8. The upregulation of a glial cell surface antigen at the astrocytic scar in the rat. Irwin MH and Geisert EE Jr, Neurosci Lett 1993 May 14;154(1-2):57-60.
9. Actinin-4 Governs Dendritic Spine Dynamics and Promotes Their Remodeling by Metabotropic Glutamate Receptors. Kalinowska M, etal., J Biol Chem. 2015 Jun 26;290(26):15909-20. doi: 10.1074/jbc.M115.640136. Epub 2015 May 5.
10. Mutations in ACTN4, encoding alpha-actinin-4, cause familial focal segmental glomerulosclerosis. Kaplan JM, etal., Nat Genet. 2000 Mar;24(3):251-6.
11. Nephrin forms a complex with adherens junction proteins and CASK in podocytes and in Madin-Darby canine kidney cells expressing nephrin. Lehtonen S, etal., Am J Pathol. 2004 Sep;165(3):923-36.
12. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
13. Landscape of the hnRNP K protein-protein interactome. Mikula M, etal., Proteomics. 2006 Apr;6(8):2395-406.
14. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
15. Identification of a multiprotein "motor" complex binding to water channel aquaporin-2. Noda Y, etal., Biochem Biophys Res Commun. 2005 May 20;330(4):1041-7.
16. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
17. Involvement of LMO7 in the association of two cell-cell adhesion molecules, nectin and E-cadherin, through afadin and alpha-actinin in epithelial cells. Ooshio T, etal., J Biol Chem 2004 Jul 23;279(30):31365-73. Epub 2004 May 12.
18. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
19. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
20. [Complex evaluation of the health status indicators of military personnel]. Poliakov LE, etal., Voen Med Zh. 1978 Nov;(11):15-20.
21. GOA pipeline RGD automated data pipeline
22. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
23. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
24. Rab13 regulates neurite outgrowth in PC12 cells through its effector protein, JRAB/MICAL-L2. Sakane A, etal., Mol Cell Biol. 2010 Feb;30(4):1077-87. doi: 10.1128/MCB.01067-09. Epub 2009 Dec 14.
25. Proteomics profiling of nuclear proteins for kidney fibroblasts suggests hypoxia, meiosis, and cancer may meet in the nucleus. Shakib K, etal., Proteomics. 2005 Jul;5(11):2819-38.
26. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
27. Pdlim2, a novel PDZ-LIM domain protein, interacts with alpha-actinins and filamin A. Torrado M, etal., Invest Ophthalmol Vis Sci 2004 Nov;45(11):3955-63.
Additional References at PubMed
PMID:8889548   PMID:9508771   PMID:10954430   PMID:11948184   PMID:12411747   PMID:12782671   PMID:12960352   PMID:15048094   PMID:15465019   PMID:15619032   PMID:15633123   PMID:15841212  
PMID:16025302   PMID:16502470   PMID:16791210   PMID:16837921   PMID:17014558   PMID:17289661   PMID:18332111   PMID:18617516   PMID:19199708   PMID:19640905   PMID:19943616   PMID:20131911  
PMID:20215401   PMID:20368620   PMID:20458337   PMID:21362503   PMID:21423176   PMID:21784188   PMID:21940706   PMID:22082260   PMID:22351778   PMID:22544326   PMID:22658674   PMID:23106098  
PMID:23376485   PMID:23533145   PMID:23890175   PMID:24625528   PMID:24780915   PMID:25411248   PMID:25918384   PMID:26538022   PMID:27874083   PMID:35352799  


Genomics

Comparative Map Data
Actn4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8193,310,294 - 93,379,369 (-)NCBIGRCr8
mRatBN7.2184,182,783 - 84,251,867 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl184,182,788 - 84,251,847 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx189,592,702 - 89,661,646 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0198,051,807 - 98,120,960 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0191,348,565 - 91,417,509 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0187,078,012 - 87,147,347 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl187,078,020 - 87,147,333 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0188,258,630 - 88,327,965 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4184,000,723 - 84,073,767 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1184,079,711 - 84,151,876 (-)NCBI
Celera178,572,890 - 78,641,919 (-)NCBICelera
Cytogenetic Map1q21NCBI
ACTN4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381938,647,649 - 38,731,589 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1938,647,649 - 38,731,589 (+)EnsemblGRCh38hg38GRCh38
GRCh371939,138,289 - 39,222,229 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361943,830,167 - 43,913,010 (+)NCBINCBI36Build 36hg18NCBI36
Build 341943,830,166 - 43,913,010NCBI
Celera1935,940,352 - 36,023,163 (+)NCBICelera
Cytogenetic Map19q13.2NCBI
HuRef1935,584,836 - 35,667,954 (+)NCBIHuRef
CHM1_11939,139,090 - 39,221,979 (+)NCBICHM1_1
T2T-CHM13v2.01941,451,629 - 41,535,643 (+)NCBIT2T-CHM13v2.0
Actn4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39728,592,673 - 28,661,799 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl728,592,673 - 28,661,765 (-)EnsemblGRCm39 Ensembl
GRCm38728,893,248 - 28,962,351 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl728,893,248 - 28,962,340 (-)EnsemblGRCm38mm10GRCm38
MGSCv37729,678,273 - 29,747,299 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36728,602,014 - 28,671,040 (-)NCBIMGSCv36mm8
Celera723,454,694 - 23,523,720 (-)NCBICelera
Cytogenetic Map7B1NCBI
cM Map716.94NCBI
Actn4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955468770,573 - 842,209 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955468770,573 - 841,859 (-)NCBIChiLan1.0ChiLan1.0
ACTN4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22044,939,775 - 45,022,391 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11946,810,115 - 46,892,741 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01935,742,758 - 35,825,321 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11944,313,569 - 44,395,508 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1944,313,569 - 44,395,508 (+)Ensemblpanpan1.1panPan2
ACTN4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11114,354,993 - 114,427,997 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1114,309,693 - 114,427,991 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1113,759,618 - 113,832,649 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01114,956,867 - 115,029,926 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1114,912,152 - 115,030,195 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11114,530,067 - 114,602,907 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01114,147,609 - 114,220,650 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01115,186,154 - 115,259,191 (-)NCBIUU_Cfam_GSD_1.0
Actn4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934913,167,758 - 13,237,529 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049368011,333,077 - 1,404,054 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049368011,333,077 - 1,402,885 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ACTN4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl647,493,919 - 47,565,998 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1647,493,834 - 47,565,999 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2643,045,503 - 43,126,155 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ACTN4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1633,290,639 - 33,373,059 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl633,290,622 - 33,374,693 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607311,240,578 - 11,323,802 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Actn4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462479412,042,533 - 12,113,886 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462479412,042,627 - 12,113,762 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Actn4
193 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:527
Count of miRNA genes:237
Interacting mature miRNAs:270
Transcripts:ENSRNOT00000027773
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1554320Bmd1Bone mineral density QTL 112.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)150910886060548Rat
631688Hcas2Hepatocarcinoma susceptibility QTL 230.0001liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)15925874115540829Rat
631495Bp96Blood pressure QTL 964.52arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)122340647102268831Rat
1358359Sradr1Stress Responsive Adrenal Weight QTL 14.74adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)130882023123479925Rat
70225Bp58Blood pressure QTL 583.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132356093162846471Rat
1300172Bp172Blood pressure QTL 1723.56arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)13273727390665040Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132737458199368955Rat
2313051Bss57Bone structure and strength QTL 573.70.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)143284731118944897Rat
2313059Bss55Bone structure and strength QTL 553.20.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143284731118944897Rat
2313072Bss53Bone structure and strength QTL 534.30.0001tibia length (VT:0004357)tibia length (CMO:0000450)143284731118944897Rat
2313078Bss54Bone structure and strength QTL 543.50.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)143284731118944897Rat
2313094Bss58Bone structure and strength QTL 583.70.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143284731118944897Rat
2313098Bmd70Bone mineral density QTL 703.60.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)143284731118944897Rat
2313099Bss56Bone structure and strength QTL 562.40.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)143284731118944897Rat
2302059Pia36Pristane induced arthritis QTL 363.80.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)14333300288333002Rat
2313402Anxrr24Anxiety related response QTL 24aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)148963584144267916Rat
1578649Bmd8Bone mineral density QTL 84.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)14939317294393172Rat
1578654Bss10Bone structure and strength QTL 104femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)149393172159356837Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)149393289199050459Rat
6903308Scl36Serum cholesterol QTL 3620.0125blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)15386304190532583Rat
61342Bp27Blood pressure QTL 273.40.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)15673266898773277Rat
2300164Bmd44Bone mineral density QTL 445.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)156949932101949932Rat
2298545Neuinf8Neuroinflammation QTL 84.6nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)157336763151090257Rat
1300121Hrtrt1Heart rate QTL 13.7heart pumping trait (VT:2000009)heart rate (CMO:0000002)165789093115540829Rat
7421628Bp361Blood pressure QTL 3610.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)166023617118608521Rat
631512Scl6Serum cholesterol level QTL 69.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)17219768090508767Rat
1358192Ept13Estrogen-induced pituitary tumorigenesis QTL 133.4pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)177494165122494165Rat
10054135Gmadr2Adrenal mass QTL 21.970.0129adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)177857876122857876Rat
1549903Bp267Blood pressure QTL 267arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)177876254106047988Rat
61344Bp29Blood pressure QTL 297.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)178350581123350581Rat
7411712Strs4Sensitivity to stroke QTL 48.7cerebrum integrity trait (VT:0010549)percentage of study population developing cerebrovascular lesions during a period of time (CMO:0000932)178430536123430536Rat
61433Cia2Collagen induced arthritis QTL 25joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)17843075491209302Rat
1582234Gluco18Glucose level QTL 183.40.0003blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)178479925123479925Rat
4889494Scort2Serum corticosterone level QTL 24.2blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)180592172125592172Rat
1578780Cm52Cardiac mass QTL 523.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)181591954219808434Rat
2313083Bmd74Bone mineral density QTL 7440.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)182174743118944897Rat
738022Anxrr13Anxiety related response QTL 134.60.00039locomotor behavior trait (VT:0001392)number of 20 x 20 cm floor squares crossed into, out of or within a discrete space in an experimental apparatus (CMO:0001514)183547917128547917Rat

Markers in Region
BM385106  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2184,207,270 - 84,207,455 (+)MAPPERmRatBN7.2
Rnor_6.0187,102,767 - 87,102,951NCBIRnor6.0
Rnor_5.0188,283,385 - 88,283,569UniSTSRnor5.0
RGSC_v3.4184,025,209 - 84,025,393UniSTSRGSC3.4
Celera178,597,399 - 78,597,583UniSTS
RH 3.4 Map1824.7UniSTS
Cytogenetic Map1q22UniSTS
RH130124  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2184,182,829 - 84,183,027 (+)MAPPERmRatBN7.2
Rnor_6.0187,078,059 - 87,078,256NCBIRnor6.0
Rnor_5.0188,258,677 - 88,258,874UniSTSRnor5.0
RGSC_v3.4184,000,770 - 84,000,967UniSTSRGSC3.4
Celera178,572,937 - 78,573,134UniSTS
RH 3.4 Map1829.8UniSTS
Cytogenetic Map1q22UniSTS
Cytogenetic Map1q21UniSTS
MARC_12245-12246:1008698037:1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2184,201,188 - 84,201,994 (+)MAPPERmRatBN7.2
Rnor_6.0187,096,545 - 87,097,350NCBIRnor6.0
Rnor_5.0188,277,163 - 88,277,968UniSTSRnor5.0
RGSC_v3.4184,019,127 - 84,019,932UniSTSRGSC3.4
Celera178,591,317 - 78,592,122UniSTS
Cytogenetic Map1q22UniSTS


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

alimentary part of gastrointestinal system 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 3 43 57 41 19 41 5 7 74 35 41 11 5
Low 3 4 3
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000027773   ⟹   ENSRNOP00000027773
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl184,182,793 - 84,251,800 (-)Ensembl
Rnor_6.0 Ensembl187,078,020 - 87,147,308 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000089305   ⟹   ENSRNOP00000071262
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl184,183,178 - 84,251,847 (-)Ensembl
Rnor_6.0 Ensembl187,078,890 - 87,147,308 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000090402   ⟹   ENSRNOP00000073566
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl184,182,788 - 84,208,505 (-)Ensembl
Rnor_6.0 Ensembl187,078,847 - 87,147,333 (-)Ensembl
RefSeq Acc Id: NM_031675   ⟹   NP_113863
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8193,310,294 - 93,379,320 (-)NCBI
mRatBN7.2184,182,783 - 84,251,818 (-)NCBI
Rnor_6.0187,078,012 - 87,147,308 (-)NCBI
Rnor_5.0188,258,630 - 88,327,965 (-)NCBI
RGSC_v3.4184,000,723 - 84,073,767 (-)RGD
Celera178,572,890 - 78,641,919 (-)RGD
Sequence:
RefSeq Acc Id: XM_006228687   ⟹   XP_006228749
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8193,310,294 - 93,379,359 (-)NCBI
mRatBN7.2184,182,783 - 84,251,857 (-)NCBI
Rnor_6.0187,078,420 - 87,147,347 (-)NCBI
Rnor_5.0188,258,630 - 88,327,965 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006228688   ⟹   XP_006228750
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8193,310,294 - 93,379,369 (-)NCBI
mRatBN7.2184,182,783 - 84,251,867 (-)NCBI
Rnor_6.0187,079,046 - 87,147,347 (-)NCBI
Rnor_5.0188,258,630 - 88,327,965 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006228689   ⟹   XP_006228751
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8193,310,294 - 93,379,359 (-)NCBI
mRatBN7.2184,182,783 - 84,251,857 (-)NCBI
Rnor_6.0187,079,046 - 87,147,200 (-)NCBI
Rnor_5.0188,258,630 - 88,327,965 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008759185   ⟹   XP_008757407
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8193,310,294 - 93,379,359 (-)NCBI
mRatBN7.2184,182,783 - 84,251,867 (-)NCBI
Rnor_6.0187,078,012 - 87,147,347 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_113863   ⟸   NM_031675
- UniProtKB: Q6P786 (UniProtKB/Swiss-Prot),   Q9QXQ0 (UniProtKB/Swiss-Prot),   A6J9M1 (UniProtKB/TrEMBL),   A0A8L2UKD4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006228751   ⟸   XM_006228689
- Peptide Label: isoform X3
- UniProtKB: A0A8L2UKD4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006228749   ⟸   XM_006228687
- Peptide Label: isoform X1
- UniProtKB: A0A8L2UKD4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006228750   ⟸   XM_006228688
- Peptide Label: isoform X2
- UniProtKB: A0A0G2K013 (UniProtKB/TrEMBL),   A0A8L2UKD4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008757407   ⟸   XM_008759185
- Peptide Label: isoform X4
- UniProtKB: A0A8L2UKD4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000071262   ⟸   ENSRNOT00000089305
RefSeq Acc Id: ENSRNOP00000073566   ⟸   ENSRNOT00000090402
RefSeq Acc Id: ENSRNOP00000027773   ⟸   ENSRNOT00000027773
Protein Domains
Calponin-homology (CH)   EF-hand

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9QXQ0-F1-model_v2 AlphaFold Q9QXQ0 1-911 view protein structure

Transcriptome

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

Promoters
RGD ID:13689891
Promoter ID:EPDNEW_R414
Type:initiation region
Name:Actn4_1
Description:actinin alpha 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_6.0187,147,312 - 87,147,372EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:61816 AgrOrtholog
BioCyc Gene G2FUF-60206 BioCyc
Ensembl Genes ENSRNOG00000020433 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00055033301 UniProtKB/Swiss-Prot
  ENSRNOG00060032369 UniProtKB/Swiss-Prot
  ENSRNOG00065034058 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000027773 ENTREZGENE
  ENSRNOT00000027773.8 UniProtKB/TrEMBL
  ENSRNOT00000089305 ENTREZGENE
  ENSRNOT00000089305.2 UniProtKB/TrEMBL
  ENSRNOT00000090402 ENTREZGENE
  ENSRNOT00000090402.2 UniProtKB/TrEMBL
  ENSRNOT00055057604 UniProtKB/Swiss-Prot
  ENSRNOT00060056298 UniProtKB/Swiss-Prot
  ENSRNOT00065058504 UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.418.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  1.20.58.60 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EF-hand UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:5623735 IMAGE-MGC_LOAD
InterPro Actinin_actin-bd_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CH-domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CH_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EF-hand-dom_pair UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EF-hand_Ca_insen UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EF_Hand_1_Ca_BS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EF_hand_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Spectrin/alpha-actinin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Spectrin_repeat UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:63836 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:72395 IMAGE-MGC_LOAD
NCBI Gene 63836 ENTREZGENE
PANTHER ALPHA-ACTININ-4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SPECTRIN/FILAMIN RELATED CYTOSKELETAL PROTEIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam EF-hand_7 UniProtKB/TrEMBL
  EF-hand_8 UniProtKB/TrEMBL
  EFhand_Ca_insen UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PF00307 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Spectrin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Actn4 PhenoGen
PROSITE ACTININ_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ACTININ_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EF_HAND_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EF_HAND_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PS50021 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000020433 RatGTEx
  ENSRNOG00055033301 RatGTEx
  ENSRNOG00060032369 RatGTEx
  ENSRNOG00065034058 RatGTEx
SMART EFh UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  efhand_Ca_insen UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00033 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SPEC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP Spectrin repeat UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF47473 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF47576 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2K013 ENTREZGENE, UniProtKB/TrEMBL
  A0A0G2K5U9_RAT UniProtKB/TrEMBL
  A0A8L2UKD4 ENTREZGENE, UniProtKB/TrEMBL
  A6J9M1 ENTREZGENE, UniProtKB/TrEMBL
  ACTN4_RAT UniProtKB/Swiss-Prot
  Q6P786 ENTREZGENE
  Q9QXQ0 ENTREZGENE
UniProt Secondary Q6P786 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Actn4  actinin alpha 4      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_physical_interaction binds to BERP (a novel RING finger protein belonging to the RBCC protein family), may colocalized in the cytoplasm 61532