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

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Gene: Actrt1 (actin-related protein T1) Rattus norvegicus
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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 cytoplasm. 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
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X130,462,111 - 130,463,464 (+)NCBIGRCr8
mRatBN7.2X125,584,102 - 125,585,455 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX125,584,065 - 125,585,457 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX127,699,208 - 127,700,561 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X131,255,213 - 131,256,566 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X128,784,322 - 128,785,675 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X133,227,699 - 133,229,052 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX133,227,660 - 133,229,047 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X133,306,981 - 133,308,334 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X132,709,316 - 132,710,669 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1X132,782,748 - 132,784,102 (+)NCBI
CeleraX124,561,722 - 124,563,075 (+)NCBICelera
Cytogenetic MapXq35NCBI
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  (ISO,ISS)
cytoskeleton  (IEA)
nucleus  (IBA,ISO,ISS)

Molecular Function
chromatin binding  (IBA,ISO,ISS)

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 (+)NCBIGRCr8
mRatBN7.2X125,584,102 - 125,585,455 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX125,584,065 - 125,585,457 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX127,699,208 - 127,700,561 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X131,255,213 - 131,256,566 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X128,784,322 - 128,785,675 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X133,227,699 - 133,229,052 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX133,227,660 - 133,229,047 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X133,306,981 - 133,308,334 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X132,709,316 - 132,710,669 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1X132,782,748 - 132,784,102 (+)NCBI
CeleraX124,561,722 - 124,563,075 (+)NCBICelera
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 (-)EnsemblGRCh38hg38GRCh38
GRCh37X127,184,941 - 127,186,382 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X127,012,622 - 127,014,058 (-)NCBINCBI36Build 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 Ensembl
GRCm38X46,329,007 - 46,330,345 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX46,329,007 - 46,330,345 (+)EnsemblGRCm38mm10GRCm38
MGSCv37X43,682,184 - 43,683,522 (+)NCBIGRCm37MGSCv37mm9NCBIm37
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 (-)Ensemblpanpan1.1panPan2
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 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX85,545,247 - 85,546,692 (-)NCBIDog10K_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 (-)EnsemblSpeTri2.0SpeTri2.0 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 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X104,936,448 - 104,941,473 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X120,283,645 - 120,285,115 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Actrt1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247977,165,111 - 7,166,494 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

miRNA Target Status

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 (mRatBN7.2)
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 time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X93956491138956491Rat
1598856Memor1Memory QTL 11.9exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)X103312877148312877Rat
1598809Memor15Memory QTL 154.4exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X103312877148312877Rat
738025Stresp3Stress response QTL 34.610.0066stress-related behavior trait (VT:0010451)defensive burying - approachX100567703150256146Rat
738029Stresp2Stress response QTL 23.40.0004stress-related behavior trait (VT:0010451)defensive burying - approachX112934952138400867Rat
5685004Bss104Bone structure and strength QTL 1043.9tibia area (VT:1000281)tibia area measurement (CMO:0001382)X113805422126975220Rat
10059603Bw174Body weight QTL 1743.40.025body mass (VT:0001259)body weight (CMO:0000012)X113937816152453651Rat
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X41052407146860749Rat


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
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 ENSRNOP00000053759.1
  ENSRNOP00055021338
  ENSRNOP00060031396
  ENSRNOP00065014493
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, UniProtKB/Swiss-Prot
  ENSRNOG00055015363 UniProtKB/Swiss-Prot
  ENSRNOG00060021998 UniProtKB/Swiss-Prot
  ENSRNOG00065011667 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000004591.6 UniProtKB/Swiss-Prot
  ENSRNOT00055026235 UniProtKB/Swiss-Prot
  ENSRNOT00060038096 UniProtKB/Swiss-Prot
  ENSRNOT00065018965 UniProtKB/Swiss-Prot
Gene3D-CATH 3.30.420.40 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7135866 IMAGE-MGC_LOAD
InterPro Actin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ATPase_NBD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:302796 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:94530 IMAGE-MGC_LOAD
NCBI Gene 302796 ENTREZGENE
PANTHER ACTIN UniProtKB/TrEMBL
  ACTIN-RELATED PROTEIN T1 UniProtKB/TrEMBL
  PTHR11937 UniProtKB/Swiss-Prot
  PTHR11937:SF153 UniProtKB/Swiss-Prot
Pfam Actin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Actrt1 PhenoGen
PRINTS ACTIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000003456 RatGTEx
  ENSRNOG00055015363 RatGTEx
  ENSRNOG00060021998 RatGTEx
  ENSRNOG00065011667 RatGTEx
SMART ACTIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP Actin-like ATPase domain UniProtKB/TrEMBL, 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