Acer1 (alkaline ceramidase 1) - Rat Genome Database

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Gene: Acer1 (alkaline ceramidase 1) Rattus norvegicus
Analyze
Symbol: Acer1
Name: alkaline ceramidase 1
RGD ID: 1588582
Description: Predicted to enable dihydroceramidase activity. Predicted to be involved in several processes, including cellular response to calcium ion; response to alkaline pH; and sphingolipid metabolic process. Predicted to act upstream of or within regulation of lipid metabolic process and sphingolipid metabolic process. Predicted to be located in membrane. Predicted to be active in endoplasmic reticulum. Orthologous to human ACER1 (alkaline ceramidase 1); PARTICIPATES IN Fabry disease pathway; Gaucher's disease pathway; Krabbe disease pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Asah3; LOC301118; N-acylsphingosine amidohydrolase (alkaline ceramidase) 3; similar to N-acylsphingosine amidohydrolase 3
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
GRCr891,881,361 - 1,911,439 (-)NCBIGRCr8
mRatBN7.291,794,340 - 1,824,432 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl91,793,139 - 1,824,434 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx92,228,390 - 2,258,319 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.097,577,751 - 7,607,677 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.096,533,609 - 6,563,538 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0910,061,978 - 10,093,588 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl910,061,978 - 10,093,588 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.099,062,245 - 9,093,541 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera96,692,746 - 6,724,451 (+)NCBICelera
Cytogenetic Map9q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
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. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
3. SMPDB Annotation Import Pipeline Pipeline to import SMPDB annotations from SMPDB into RGD
4. GOA pipeline RGD automated data pipeline
5. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12783875   PMID:16477081   PMID:17713573   PMID:20207939   PMID:20628055   PMID:27126290   PMID:29056331  


Genomics

Comparative Map Data
Acer1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr891,881,361 - 1,911,439 (-)NCBIGRCr8
mRatBN7.291,794,340 - 1,824,432 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl91,793,139 - 1,824,434 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx92,228,390 - 2,258,319 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.097,577,751 - 7,607,677 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.096,533,609 - 6,563,538 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0910,061,978 - 10,093,588 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl910,061,978 - 10,093,588 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.099,062,245 - 9,093,541 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera96,692,746 - 6,724,451 (+)NCBICelera
Cytogenetic Map9q11NCBI
ACER1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38196,306,142 - 6,360,368 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl196,306,142 - 6,333,612 (-)EnsemblGRCh38hg38GRCh38
GRCh37196,306,153 - 6,333,623 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36196,257,725 - 6,284,562 (-)NCBINCBI36Build 36hg18NCBI36
Build 34196,257,724 - 6,284,562NCBI
Celera196,245,303 - 6,272,430 (-)NCBICelera
Cytogenetic Map19p13.3NCBI
HuRef196,065,539 - 6,093,294 (-)NCBIHuRef
CHM1_1196,306,127 - 6,333,277 (-)NCBICHM1_1
T2T-CHM13v2.0196,294,362 - 6,349,269 (-)NCBIT2T-CHM13v2.0
Acer1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391757,260,490 - 57,289,126 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1757,260,490 - 57,289,126 (-)EnsemblGRCm39 Ensembl
GRCm381756,953,490 - 56,982,126 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1756,953,490 - 56,982,126 (-)EnsemblGRCm38mm10GRCm38
MGSCv371757,092,913 - 57,121,549 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361756,638,614 - 56,667,250 (-)NCBIMGSCv36mm8
Celera1761,301,415 - 61,330,050 (-)NCBICelera
Cytogenetic Map17DNCBI
cM Map1729.59NCBI
Acer1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554953,247,083 - 3,271,720 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554953,247,170 - 3,271,417 (+)NCBIChiLan1.0ChiLan1.0
ACER1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22010,706,922 - 10,738,430 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1199,932,811 - 9,964,360 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0195,327,251 - 5,393,587 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1196,252,300 - 6,281,016 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl196,252,300 - 6,281,016 (-)Ensemblpanpan1.1panPan2
ACER1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12053,819,224 - 53,838,183 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2053,819,074 - 53,838,438 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2053,566,184 - 53,584,788 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02054,473,745 - 54,491,643 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2054,473,658 - 54,491,842 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12053,540,193 - 53,558,067 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02053,988,319 - 54,007,142 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02054,218,116 - 54,237,024 (+)NCBIUU_Cfam_GSD_1.0
Acer1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118214,128,914 - 214,148,773 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365883,688,244 - 3,705,831 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365883,688,244 - 3,705,831 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ACER1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl272,743,643 - 72,769,570 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1272,704,603 - 72,767,474 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2273,283,294 - 73,331,148 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ACER1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.165,949,286 - 5,978,282 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660812,050,460 - 2,092,860 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Acer1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248284,041,875 - 4,045,675 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248284,022,288 - 4,046,235 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Acer1
190 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:522
Count of miRNA genes:196
Interacting mature miRNAs:229
Transcripts:ENSRNOT00000075180
Prediction methods:Microtar, 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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10054141Gmadr4Adrenal mass QTL 42.450.0074adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)9114209783Rat
70226Eae4Experimental allergic encephalomyelitis QTL 4nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)9125661317Rat
9589055Scfw5Subcutaneous fat weight QTL 55.550.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)9137999212Rat
7411592Foco8Food consumption QTL 87.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9137999212Rat
9589158Gluco65Glucose level QTL 656.820.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)9137999212Rat
1300124Cm4Cardiac mass QTL 43.55heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)9140594091Rat
1298088Edpm11Estrogen-dependent pituitary mass QTL 112.5pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)9143718459Rat
1641911Alcrsp13Alcohol response QTL 13response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)9143718459Rat
10054125Srcrt7Stress Responsive Cort QTL 73.330.0011blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)9187073594Rat
1331757Cdexp1CD45RC expression in CD8 T cells QTL 14.3CD8-positive T cell quantity (VT:0008077)blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)9102453767509080Rat
1354650Despr5Despair related QTL 54.010.0017locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)9125408446254084Rat
2303559Gluco54Glucose level QTL 542blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)9125408446254084Rat


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 musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 2
Low 1 2 6 14 8
Below cutoff 6 36 22 14 22 1 33 17 23 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000075180   ⟹   ENSRNOP00000064840
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl91,793,139 - 1,824,434 (-)Ensembl
Rnor_6.0 Ensembl910,061,978 - 10,093,588 (+)Ensembl
RefSeq Acc Id: NM_001106875   ⟹   NP_001100345
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr891,881,361 - 1,911,439 (-)NCBI
mRatBN7.291,794,340 - 1,824,432 (-)NCBI
Rnor_6.0910,061,978 - 10,093,588 (+)NCBI
Rnor_5.099,062,245 - 9,093,541 (+)NCBI
Celera96,692,746 - 6,724,451 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001100345 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL83598 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000064840
  ENSRNOP00000064840.1
Reference Protein Sequences
RefSeq Acc Id: NP_001100345   ⟸   NM_001106875
- UniProtKB: M0R603 (UniProtKB/TrEMBL),   A6KQU0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000064840   ⟸   ENSRNOT00000075180

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0R603-F1-model_v2 AlphaFold M0R603 1-273 view protein structure

Transcriptome

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

Promoters
RGD ID:13696446
Promoter ID:EPDNEW_R6971
Type:initiation region
Name:Acer1_1
Description:alkaline ceramidase 1
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_6.0910,061,951 - 10,062,011EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1588582 AgrOrtholog
BioCyc Gene G2FUF-28501 BioCyc
Ensembl Genes ENSRNOG00000047368 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000075180 ENTREZGENE
  ENSRNOT00000075180.3 UniProtKB/TrEMBL
InterPro Ceramidase UniProtKB/TrEMBL
KEGG Report rno:301118 UniProtKB/TrEMBL
NCBI Gene 301118 ENTREZGENE
PANTHER ALKALINE CERAMIDASE 1 UniProtKB/TrEMBL
  PTHR46139 UniProtKB/TrEMBL
Pfam Ceramidase UniProtKB/TrEMBL
PhenoGen Acer1 PhenoGen
RatGTEx ENSRNOG00000047368 RatGTEx
UniProt A6KQU0 ENTREZGENE, UniProtKB/TrEMBL
  M0R603 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2009-01-05 Acer1  alkaline ceramidase 1  Asah3  N-acylsphingosine amidohydrolase (alkaline ceramidase) 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-04 Asah3  N-acylsphingosine amidohydrolase (alkaline ceramidase) 3  LOC301118  similar to N-acylsphingosine amidohydrolase 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-19 LOC301118  similar to N-acylsphingosine amidohydrolase 3      Symbol and Name status set to provisional 70820 PROVISIONAL