Abhd13 (abhydrolase domain containing 13) - Rat Genome Database

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Gene: Abhd13 (abhydrolase domain containing 13) Rattus norvegicus
Analyze
Symbol: Abhd13
Name: abhydrolase domain containing 13
RGD ID: 1308317
Description: Predicted to enable palmitoyl-(protein) hydrolase activity. Predicted to be involved in macromolecule depalmitoylation. Predicted to be located in dendrite cytoplasm. Predicted to be active in membrane. Orthologous to human ABHD13 (abhydrolase domain containing 13); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2-methoxyethanol; 3-chloropropane-1,2-diol.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: abhydrolase domain-containing protein 13; alpha/beta hydrolase domain-containing protein 13; LOC306630; RGD1308317; similar to 1110065L07Rik protein
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
GRCr81686,203,851 - 86,218,843 (-)NCBIGRCr8
mRatBN7.21679,501,879 - 79,516,712 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1679,501,727 - 79,516,748 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1684,782,259 - 84,797,092 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01688,234,904 - 88,249,737 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01683,476,978 - 83,491,807 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01685,315,275 - 85,330,108 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1685,315,275 - 85,330,092 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01684,754,318 - 84,769,151 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41684,867,468 - 84,880,134 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11684,854,781 - 84,866,034 (-)NCBI
Celera1677,289,035 - 77,303,869 (-)NCBICelera
Cytogenetic Map16q12.5NCBI
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

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. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:19946888   PMID:27307232  


Genomics

Comparative Map Data
Abhd13
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81686,203,851 - 86,218,843 (-)NCBIGRCr8
mRatBN7.21679,501,879 - 79,516,712 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1679,501,727 - 79,516,748 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1684,782,259 - 84,797,092 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01688,234,904 - 88,249,737 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01683,476,978 - 83,491,807 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01685,315,275 - 85,330,108 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1685,315,275 - 85,330,092 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01684,754,318 - 84,769,151 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41684,867,468 - 84,880,134 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11684,854,781 - 84,866,034 (-)NCBI
Celera1677,289,035 - 77,303,869 (-)NCBICelera
Cytogenetic Map16q12.5NCBI
ABHD13
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3813108,218,392 - 108,234,243 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl13108,218,392 - 108,234,243 (+)EnsemblGRCh38hg38GRCh38
GRCh3713108,870,740 - 108,886,591 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3613107,668,764 - 107,684,604 (+)NCBINCBI36Build 36hg18NCBI36
Build 3413107,668,763 - 107,684,603NCBI
Celera1389,715,507 - 89,731,348 (+)NCBICelera
Cytogenetic Map13q33.3NCBI
HuRef1389,461,668 - 89,477,511 (+)NCBIHuRef
CHM1_113108,839,885 - 108,855,725 (+)NCBICHM1_1
T2T-CHM13v2.013107,444,583 - 107,460,434 (+)NCBIT2T-CHM13v2.0
Abhd13
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39810,027,717 - 10,042,155 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl810,027,707 - 10,042,155 (+)EnsemblGRCm39 Ensembl
GRCm3889,977,717 - 9,992,155 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl89,977,707 - 9,992,155 (+)EnsemblGRCm38mm10GRCm38
MGSCv3789,977,717 - 9,992,155 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3689,977,689 - 9,992,127 (+)NCBIMGSCv36mm8
Celera810,153,127 - 10,167,606 (+)NCBICelera
Cytogenetic Map8A1.1NCBI
cM Map84.53NCBI
Abhd13
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554043,587,285 - 3,605,649 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554043,587,277 - 3,605,649 (-)NCBIChiLan1.0ChiLan1.0
ABHD13
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v214109,705,227 - 109,717,624 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan113108,385,731 - 108,401,481 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01389,347,452 - 89,363,329 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.113108,485,432 - 108,501,326 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl13108,496,283 - 108,497,296 (+)Ensemblpanpan1.1panPan2
ABHD13
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12256,989,767 - 57,010,684 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2257,005,559 - 57,006,671 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2256,761,734 - 56,782,406 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02257,510,512 - 57,531,203 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2257,510,530 - 57,531,180 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12257,112,534 - 57,132,294 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02257,099,931 - 57,120,625 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02257,136,953 - 57,157,656 (+)NCBIUU_Cfam_GSD_1.0
Abhd13
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945192,093,718 - 192,105,669 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364723,846,629 - 3,847,642 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364723,845,934 - 3,858,465 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ABHD13
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1175,547,747 - 75,570,263 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11175,547,748 - 75,569,843 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21182,962,603 - 82,984,700 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ABHD13
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1386,587,155 - 86,602,978 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl386,597,958 - 86,598,971 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604643,246,685 - 43,262,567 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Abhd13
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247933,681,673 - 3,695,654 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247933,681,673 - 3,697,495 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Abhd13
62 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:177
Count of miRNA genes:130
Interacting mature miRNAs:145
Transcripts:ENSRNOT00000019563
Prediction methods:Miranda
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
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)1638024580345693Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor depth of invasion (CMO:0001888)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor depth of invasion (CMO:0001888)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161769679182635055Rat
1578768Stresp22Stress response QTL 222.8thymus mass (VT:0004954)thymus wet weight (CMO:0000855)163528887080288870Rat
2293690Bss45Bone structure and strength QTL 455.130.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)163775215682752156Rat
2300163Bmd64Bone mineral density QTL 645.30.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)163775215682752156Rat
7205510Activ5Activity QTL 53.780.00028locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)164239634584729064Rat
8694429Bw164Body weight QTL 16450.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)165272646484729064Rat
8694364Abfw7Abdominal fat weight QTL 712.220.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)165272646484729064Rat
7411648Foco22Food consumption QTL 22150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)165272646484729064Rat
631525Pia14Pristane induced arthritis QTL 144.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)165571108783402471Rat

Markers in Region
RH129326  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21679,505,281 - 79,505,468 (+)MAPPERmRatBN7.2
Rnor_6.01685,318,678 - 85,318,864NCBIRnor6.0
Rnor_5.01684,757,721 - 84,757,907UniSTSRnor5.0
RGSC_v3.41684,868,692 - 84,868,878UniSTSRGSC3.4
Celera1677,292,438 - 77,292,624UniSTS
RH 3.4 Map16768.9UniSTS
Cytogenetic Map16q12.5UniSTS


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 6 45 29 19 29 74 34 34 11
Low 37 12 12 12 8 11 1 7 8
Below cutoff

Sequence


RefSeq Acc Id: ENSRNOT00000019563   ⟹   ENSRNOP00000019563
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1679,501,840 - 79,516,748 (-)Ensembl
Rnor_6.0 Ensembl1685,315,275 - 85,330,092 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000096786   ⟹   ENSRNOP00000079883
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1679,502,405 - 79,507,073 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000101631   ⟹   ENSRNOP00000084255
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1679,501,727 - 79,516,748 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000111344   ⟹   ENSRNOP00000089757
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1679,501,727 - 79,514,457 (-)Ensembl
RefSeq Acc Id: NM_001271072   ⟹   NP_001258001
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81686,203,851 - 86,218,684 (-)NCBI
mRatBN7.21679,501,879 - 79,516,712 (-)NCBI
Rnor_6.01685,315,275 - 85,330,108 (-)NCBI
Rnor_5.01684,754,318 - 84,769,151 (-)NCBI
Celera1677,289,035 - 77,303,869 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006253478   ⟹   XP_006253540
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81686,203,855 - 86,218,843 (-)NCBI
mRatBN7.21679,501,883 - 79,516,562 (-)NCBI
Rnor_6.01685,315,279 - 85,329,909 (-)NCBI
Rnor_5.01684,754,318 - 84,769,151 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006253479   ⟹   XP_006253541
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81686,203,855 - 86,218,843 (-)NCBI
mRatBN7.21679,501,883 - 79,516,690 (-)NCBI
Rnor_6.01685,315,279 - 85,329,818 (-)NCBI
Rnor_5.01684,754,318 - 84,769,151 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008771395   ⟹   XP_008769617
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81686,203,855 - 86,218,843 (-)NCBI
mRatBN7.21679,501,883 - 79,516,690 (-)NCBI
Rnor_6.01685,315,279 - 85,329,818 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008771396   ⟹   XP_008769618
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81686,203,855 - 86,218,843 (-)NCBI
mRatBN7.21679,501,883 - 79,516,453 (-)NCBI
Rnor_6.01685,315,279 - 85,329,818 (-)NCBI
Sequence:
RefSeq Acc Id: NP_001258001   ⟸   NM_001271072
- UniProtKB: D4A1B6 (UniProtKB/TrEMBL),   A6IWS1 (UniProtKB/TrEMBL),   A6IWS0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006253541   ⟸   XM_006253479
- Peptide Label: isoform X1
- UniProtKB: D4A1B6 (UniProtKB/TrEMBL),   A6IWS1 (UniProtKB/TrEMBL),   A6IWS0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006253540   ⟸   XM_006253478
- Peptide Label: isoform X1
- UniProtKB: D4A1B6 (UniProtKB/TrEMBL),   A6IWS1 (UniProtKB/TrEMBL),   A6IWS0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008769618   ⟸   XM_008771396
- Peptide Label: isoform X1
- UniProtKB: D4A1B6 (UniProtKB/TrEMBL),   A6IWS1 (UniProtKB/TrEMBL),   A6IWS0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008769617   ⟸   XM_008771395
- Peptide Label: isoform X1
- UniProtKB: D4A1B6 (UniProtKB/TrEMBL),   A6IWS1 (UniProtKB/TrEMBL),   A6IWS0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000019563   ⟸   ENSRNOT00000019563
RefSeq Acc Id: ENSRNOP00000084255   ⟸   ENSRNOT00000101631
RefSeq Acc Id: ENSRNOP00000089757   ⟸   ENSRNOT00000111344
RefSeq Acc Id: ENSRNOP00000079883   ⟸   ENSRNOT00000096786
Protein Domains
AB hydrolase-1

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A1B6-F1-model_v2 AlphaFold D4A1B6 1-337 view protein structure

Transcriptome

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

Promoters
RGD ID:13700248
Promoter ID:EPDNEW_R10771
Type:initiation region
Name:Abhd13_1
Description:abhydrolase domain containing 13
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_6.01685,330,087 - 85,330,147EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1308317 AgrOrtholog
BioCyc Gene G2FUF-10615 BioCyc
Ensembl Genes ENSRNOG00000014598 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000019563.8 UniProtKB/TrEMBL
  ENSRNOT00000096786.1 UniProtKB/TrEMBL
  ENSRNOT00000101631.1 UniProtKB/TrEMBL
  ENSRNOT00000111344.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.1820 UniProtKB/TrEMBL
InterPro AB_hydrolase UniProtKB/TrEMBL
  AB_hydrolase_1 UniProtKB/TrEMBL
KEGG Report rno:306630 UniProtKB/TrEMBL
NCBI Gene 306630 ENTREZGENE
PANTHER ALPHA/BETA HYDROLASE DOMAIN-CONTAINING PROTEIN UniProtKB/TrEMBL
  PROTEIN ABHD13 UniProtKB/TrEMBL
Pfam Abhydrolase_1 UniProtKB/TrEMBL
PhenoGen Abhd13 PhenoGen
RatGTEx ENSRNOG00000014598 RatGTEx
Superfamily-SCOP SSF53474 UniProtKB/TrEMBL
UniProt A6IWS0 ENTREZGENE, UniProtKB/TrEMBL
  A6IWS1 ENTREZGENE, UniProtKB/TrEMBL
  D4A1B6 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-02-26 Abhd13  abhydrolase domain containing 13  RGD1308317_predicted  similar to 1110065L07Rik protein (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 RGD1308317_predicted  similar to 1110065L07Rik protein (predicted)  LOC306630_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC306630_predicted  similar to 1110065L07Rik protein (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL