LOC100154405 (actin-related protein T1) - Rat Genome Database

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Gene: LOC100154405 (actin-related protein T1) Sus scrofa
Analyze
Symbol: LOC100154405 (Ensembl: ACTRT1)
Name: actin-related protein T1 (Ensembl:actin related protein T1)
RGD ID: 14226586
Description: ENCODES a protein that exhibits chromatin binding (inferred); INVOLVED IN negative regulation of DNA-templated transcription (inferred); regulation of DNA-templated transcription (inferred); regulation of smoothened signaling pathway (inferred); ASSOCIATED WITH autistic disorder (ortholog); genetic disease (ortholog); oculocerebrorenal syndrome (ortholog); FOUND IN cytoplasm (inferred); nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: ACTRT1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
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
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IEA)
nucleus  (IEA)

Molecular Function

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
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
(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
(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
(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
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

Variants

.
Variants in LOC100154405
38 total Variants

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 nervous system
High
Medium
Low 4
Below cutoff 1 4

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000013829   ⟹   ENSSSCP00000013447
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 EnsemblX104,937,348 - 104,938,481 (-)Ensembl
RefSeq Acc Id: XM_021080542   ⟹   XP_020936201
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1X104,936,448 - 104,941,473 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_020936201   ⟸   XM_021080542
- UniProtKB: F1RTJ0 (UniProtKB/TrEMBL),   A0A4X1W206 (UniProtKB/TrEMBL),   A0A8D1RPN7 (UniProtKB/TrEMBL),   A0A8D1MGS4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000013447   ⟸   ENSSSCT00000013829


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000012648 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00005000792 UniProtKB/TrEMBL
  ENSSSCG00025011378 UniProtKB/TrEMBL
  ENSSSCG00030046120 UniProtKB/TrEMBL
  ENSSSCG00035033155 UniProtKB/TrEMBL
  ENSSSCG00040071682 UniProtKB/TrEMBL
  ENSSSCG00045028968 UniProtKB/TrEMBL
  ENSSSCG00050039530 UniProtKB/TrEMBL
  ENSSSCG00055024691 UniProtKB/TrEMBL
  ENSSSCG00060004731 UniProtKB/TrEMBL
  ENSSSCG00065057306 UniProtKB/TrEMBL
  ENSSSCG00070029401 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000013829 ENTREZGENE
  ENSSSCT00000013829.5 UniProtKB/TrEMBL
  ENSSSCT00005001057.1 UniProtKB/TrEMBL
  ENSSSCT00025014904.1 UniProtKB/TrEMBL
  ENSSSCT00030064327.1 UniProtKB/TrEMBL
  ENSSSCT00035043926.1 UniProtKB/TrEMBL
  ENSSSCT00040098527.1 UniProtKB/TrEMBL
  ENSSSCT00045049429.1 UniProtKB/TrEMBL
  ENSSSCT00050053343.1 UniProtKB/TrEMBL
  ENSSSCT00055048643.1 UniProtKB/TrEMBL
  ENSSSCT00060005875.1 UniProtKB/TrEMBL
  ENSSSCT00065078431.1 UniProtKB/TrEMBL
  ENSSSCT00070059053.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.420.40 UniProtKB/TrEMBL
InterPro Actin UniProtKB/TrEMBL
  ATPase_NBD UniProtKB/TrEMBL
NCBI Gene LOC100154405 ENTREZGENE
PANTHER PTHR11937 UniProtKB/TrEMBL
  PTHR11937:SF153 UniProtKB/TrEMBL
Pfam Actin UniProtKB/TrEMBL
PRINTS ACTIN UniProtKB/TrEMBL
SMART ACTIN UniProtKB/TrEMBL
Superfamily-SCOP SSF53067 UniProtKB/TrEMBL
UniProt A0A4X1W206 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1MGS4 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1RPN7 ENTREZGENE, UniProtKB/TrEMBL
  F1RTJ0 ENTREZGENE
UniProt Secondary F1RTJ0 UniProtKB/TrEMBL