Actrt1 (actin-related protein T1) - Rat Genome Database

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Gene: Actrt1 (actin-related protein T1) Rattus norvegicus
Analyze
Symbol: Actrt1
Name: actin-related protein T1
RGD ID: 1359559
Description: Predicted to enable chromatin binding activity. Predicted to be involved in negative regulation of DNA-templated transcription and regulation of smoothened signaling pathway. Predicted to be located in acrosomal vesicle. Predicted to be active in actin cytoskeleton and nucleus. Orthologous to human ACTRT1 (actin related protein T1); INTERACTS WITH bisphenol A; aflatoxin B1 (ortholog); atrazine (ortholog).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC302796; similar to actin-related protein T1
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
GRCr8X130,462,111 - 130,463,464 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblX130,461,929 - 130,463,587 (+)EnsemblGRCr8
mRatBN7.2X125,584,102 - 125,585,455 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX125,584,065 - 125,585,457 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_UtxX127,699,208 - 127,700,561 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X131,255,213 - 131,256,566 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X128,784,322 - 128,785,675 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X133,227,699 - 133,229,052 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX133,227,660 - 133,229,047 (+)Ensemblrn6Rnor6.0
Rnor_5.0X133,306,981 - 133,308,334 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4X132,709,316 - 132,710,669 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
CeleraX124,561,722 - 124,563,075 (+)NCBICelera
RGSC_v3.1X132,782,748 - 132,784,102 (+)NCBI
Cytogenetic MapXq35NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

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

Cellular Component
acrosomal vesicle  (IEA,ISO,ISS)
actin cytoskeleton  (IBA)
cytoplasm  (IEA,ISO,ISS)
cytoplasmic vesicle  (IEA)
cytoskeleton  (IEA)
nucleus  (IBA,IEA,ISO,ISS)

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. GOA pipeline RGD automated data pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. 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.
Additional References at PubMed
PMID:15489334   PMID:28869610  


Genomics

Comparative Map Data
Actrt1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X130,462,111 - 130,463,464 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblX130,461,929 - 130,463,587 (+)EnsemblGRCr8
mRatBN7.2X125,584,102 - 125,585,455 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX125,584,065 - 125,585,457 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_UtxX127,699,208 - 127,700,561 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X131,255,213 - 131,256,566 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X128,784,322 - 128,785,675 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X133,227,699 - 133,229,052 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX133,227,660 - 133,229,047 (+)Ensemblrn6Rnor6.0
Rnor_5.0X133,306,981 - 133,308,334 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4X132,709,316 - 132,710,669 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
CeleraX124,561,722 - 124,563,075 (+)NCBICelera
RGSC_v3.1X132,782,748 - 132,784,102 (+)NCBI
Cytogenetic MapXq35NCBI
ACTRT1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X128,050,962 - 128,052,403 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX128,050,962 - 128,052,403 (-)Ensemblhg38GRCh38
GRCh37X127,184,941 - 127,186,382 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X127,012,622 - 127,014,058 (-)NCBIBuild 36Build 36hg18NCBI36
CeleraX127,568,642 - 127,570,083 (-)NCBICelera
Cytogenetic MapXq25NCBI
HuRefX116,588,275 - 116,589,716 (-)NCBIHuRef
CHM1_1X127,096,120 - 127,097,561 (-)NCBICHM1_1
T2T-CHM13v2.0X126,364,457 - 126,365,898 (-)NCBIT2T-CHM13v2.0
Actrt1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X45,417,884 - 45,419,222 (+)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX45,417,884 - 45,419,222 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38X46,329,007 - 46,330,345 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX46,329,007 - 46,330,345 (+)Ensemblmm10GRCm38
MGSCv37X43,682,184 - 43,683,522 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36X42,573,634 - 42,574,974 (+)NCBIMGSCv36mm8
CeleraX33,855,238 - 33,856,576 (+)NCBICelera
Cytogenetic MapXA4NCBI
cM MapX24.54NCBI
Actrt1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554736,849,016 - 6,850,445 (+)NCBIChiLan1.0ChiLan1.0
ACTRT1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X127,493,220 - 127,494,780 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X127,496,834 - 127,498,394 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X117,200,264 - 117,201,906 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X127,452,218 - 127,453,653 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX127,452,332 - 127,453,462 (-)EnsemblpanPan2panpan1.1
ACTRT1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X99,375,867 - 99,377,318 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX99,375,977 - 99,377,110 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_TashaX85,545,247 - 85,546,692 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
Actrt1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X97,707,295 - 97,708,814 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364793,278,795 - 3,279,928 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049364793,278,795 - 3,279,928 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LOC100154405
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX104,937,348 - 104,938,481 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1X104,936,448 - 104,941,473 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X120,283,645 - 120,285,115 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ACTRT1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X103,297,350 - 103,299,056 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX103,297,464 - 103,298,591 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366606540,751,417 - 40,752,897 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Actrt1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247977,165,111 - 7,166,494 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Actrt1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1X110,977,095 - 110,978,432 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Actrt1
4 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:82
Count of miRNA genes:78
Interacting mature miRNAs:79
Transcripts:ENSRNOT00000004591
Prediction methods:Microtar, Miranda, Pita, 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
1598872Memor14Memory QTL 144.5exploratory behavior trait (VT:0010471)difference between duration of physical contact or close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X97528096142528096Rat
1598856Memor1Memory QTL 11.9exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)X120028026141353710Rat
1598809Memor15Memory QTL 154.4exploratory behavior trait (VT:0010471)difference between duration of physical contact or close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X120028026141353710Rat
738025Stresp3Stress response QTL 34.610.0066stress-related behavior trait (VT:0010451)defensive burying - approachX105359969157758123Rat
10059603Bw174Body weight QTL 1743.40.025body mass (VT:0001259)body weight (CMO:0000012)X118973754157758123Rat
2302047Pia34Pristane induced arthritis QTL 345.80.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)1996916163141916163Rat


Expression

RNA-SEQ Expression

appendage
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
mesenchyme
mesoderm
nervous system
reproductive system
respiratory system
4 7 3 3 2 2 2 8 2 7 19 1

Sequence


Ensembl Acc Id: ENSRNOT00000004591   ⟹   ENSRNOP00000053759
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX130,461,929 - 130,463,587 (+)Ensembl
mRatBN7.2 EnsemblX125,584,065 - 125,585,457 (+)Ensembl
Rnor_6.0 EnsemblX133,227,660 - 133,229,047 (+)Ensembl
RefSeq Acc Id: NM_001013961   ⟹   NP_001013983
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X130,462,111 - 130,463,464 (+)NCBI
mRatBN7.2X125,584,102 - 125,585,455 (+)NCBI
Rnor_6.0X133,227,699 - 133,229,052 (+)NCBI
Rnor_5.0X133,306,981 - 133,308,334 (+)NCBI
RGSC_v3.4X132,709,316 - 132,710,669 (+)RGD
CeleraX124,561,722 - 124,563,075 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001013983 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH83679 (Get FASTA)   NCBI Sequence Viewer  
  EDM10900 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000053759
  ENSRNOP00000053759.1
GenBank Protein Q5XIK1 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001013983   ⟸   NM_001013961
- UniProtKB: Q5XIK1 (UniProtKB/Swiss-Prot),   A6JMN8 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000053759   ⟸   ENSRNOT00000004591

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5XIK1-F1-model_v2 AlphaFold Q5XIK1 1-376 view protein structure

Transcriptome

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

Promoters
RGD ID:13702006
Promoter ID:EPDNEW_R12530
Type:single initiation site
Name:Actrt1_1
Description:actin-related protein T1
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_6.0X133,227,682 - 133,227,742EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1359559 AgrOrtholog
BioCyc Gene G2FUF-1157 BioCyc
Ensembl Genes ENSRNOG00000003456 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000004591 ENTREZGENE
  ENSRNOT00000004591.6 UniProtKB/Swiss-Prot
Gene3D-CATH 3.30.420.40 UniProtKB/Swiss-Prot
  Actin, Chain A, domain 4 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7135866 IMAGE-MGC_LOAD
InterPro Actin UniProtKB/Swiss-Prot
  ATPase_NBD UniProtKB/Swiss-Prot
KEGG Report rno:302796 UniProtKB/Swiss-Prot
MGC_CLONE MGC:94530 IMAGE-MGC_LOAD
NCBI Gene 302796 ENTREZGENE
PANTHER PTHR11937 UniProtKB/Swiss-Prot
Pfam Actin UniProtKB/Swiss-Prot
PhenoGen Actrt1 PhenoGen
PRINTS ACTIN UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000003456 RatGTEx
SMART ACTIN UniProtKB/Swiss-Prot
Superfamily-SCOP SSF53067 UniProtKB/Swiss-Prot
UniProt A6JMN8 ENTREZGENE, UniProtKB/TrEMBL
  ACTT1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2006-03-30 Actrt1  actin-related protein T1  LOC302796  similar to actin-related protein T1  Symbol and Name updated 1299863 APPROVED
2005-07-29 LOC302796  similar to actin-related protein T1      Symbol and Name status set to provisional 70820 PROVISIONAL