Hacl1 (2-hydroxyacyl-CoA lyase 1) - Rat Genome Database

Send us a Message



 Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) RatMine GViewer (Genome Viewer) Overgo Probe Designer VCMap
Aging & Age-Related Disease Cancer Cardiovascular Disease COVID-19 Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models PhenoMiner (Quantitative Phenotypes) Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes GERRC (Gene Editing Rat Resource Center) Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Poster Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Hacl1 (2-hydroxyacyl-CoA lyase 1) Rattus norvegicus
Analyze
Symbol: Hacl1
Name: 2-hydroxyacyl-CoA lyase 1
RGD ID: 619849
Description: Enables carbon-carbon lyase activity and thiamine pyrophosphate binding activity. Involved in fatty acid alpha-oxidation and methyl-branched fatty acid metabolic process. Located in peroxisome. Orthologous to human HACL1 (2-hydroxyacyl-CoA lyase 1); PARTICIPATES IN phytanic acid degradation pathway; Refsum disease pathway; INTERACTS WITH 1-naphthyl isothiocyanate; 2,2',4,4',5,5'-hexachlorobiphenyl; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: 2-HPCL; 2-hydroxyphytanoyl-CoA lyase; 2-hydroxyphytanoyl-Coenzyme A lyase; Hpcl2; Phyh2; phytanoyl-CoA 2-hydroxylase 2; phytanoyl-Coenzyme A 2-hydroxylase 2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2166,826,881 - 6,863,027 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl166,824,906 - 6,863,027 (-)Ensembl
Rnor_6.0167,720,047 - 7,758,119 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl167,714,465 - 7,758,189 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0167,646,580 - 7,682,704 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4167,073,038 - 7,108,830 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1167,073,036 - 7,108,828 (-)NCBI
Celera168,335,334 - 8,371,457 (+)NCBICelera
Cytogenetic Map16p16NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1-naphthyl isothiocyanate  (EXP)
17beta-estradiol  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (EXP)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrabromodibenzodioxine  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
acetamide  (EXP)
aconitine  (EXP)
aflatoxin B1  (EXP,ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
Aroclor 1254  (EXP)
arsenous acid  (ISO)
atazanavir sulfate  (ISO)
benzene  (EXP)
benzo[a]pyrene  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP)
buspirone  (EXP)
C60 fullerene  (EXP)
carbamazepine  (ISO)
carbon nanotube  (ISO)
carmustine  (EXP)
chenodeoxycholic acid  (ISO)
cholesterol  (ISO)
chromium trinitrate  (ISO)
chromium(6+)  (ISO)
cisplatin  (ISO)
clofibrate  (EXP)
clofibric acid  (EXP)
cobalt dichloride  (EXP)
cyclosporin A  (ISO)
decabromodiphenyl ether  (EXP)
deoxycholic acid  (ISO)
diarsenic trioxide  (ISO)
dicrotophos  (ISO)
dioxygen  (ISO)
doxorubicin  (ISO)
ethanol  (ISO)
flutamide  (EXP)
folic acid  (ISO)
furan  (EXP)
glafenine  (EXP)
glycochenodeoxycholic acid  (ISO)
glycocholic acid  (ISO)
glycodeoxycholic acid  (ISO)
ivermectin  (ISO)
methapyrilene  (EXP)
methotrexate  (EXP)
Muraglitazar  (EXP)
N-nitrosodiethylamine  (EXP,ISO)
nickel atom  (ISO)
nimesulide  (EXP)
oxycodone  (EXP)
paclitaxel  (EXP)
paracetamol  (ISO)
perfluorooctanoic acid  (EXP)
pirinixic acid  (EXP,ISO)
potassium chromate  (ISO)
quercetin  (ISO)
resveratrol  (ISO)
sodium arsenite  (ISO)
sunitinib  (ISO)
Tesaglitazar  (EXP)
tetrachloroethene  (ISO)
tetrachloromethane  (EXP,ISO)
thioacetamide  (EXP)
tioguanine  (EXP)
triphenyl phosphate  (EXP)
troglitazone  (EXP,ISO)
trovafloxacin  (EXP)
tungsten  (ISO)
valproic acid  (ISO)
zinc atom  (EXP)
zinc(0)  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Purification, molecular cloning, and expression of 2-hydroxyphytanoyl-CoA lyase, a peroxisomal thiamine pyrophosphate-dependent enzyme that catalyzes the carbon-carbon bond cleavage during alpha-oxidation of 3-methyl-branched fatty acids. Foulon V, etal., Proc Natl Acad Sci U S A 1999 Aug 31;96(18):10039-44.
2. 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.
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
5. SMPDB Annotation Import Pipeline Pipeline to import SMPDB annotations from SMPDB into RGD
6. GOA pipeline RGD automated data pipeline
7. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
8. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
9. 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:11171065   PMID:14561759   PMID:15644336   PMID:16189514   PMID:20178365   PMID:21708296   PMID:25416956   PMID:28289220   PMID:28629946  


Genomics

Comparative Map Data
Hacl1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2166,826,881 - 6,863,027 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl166,824,906 - 6,863,027 (-)Ensembl
Rnor_6.0167,720,047 - 7,758,119 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl167,714,465 - 7,758,189 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0167,646,580 - 7,682,704 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4167,073,038 - 7,108,830 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1167,073,036 - 7,108,828 (-)NCBI
Celera168,335,334 - 8,371,457 (+)NCBICelera
Cytogenetic Map16p16NCBI
HACL1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38315,560,699 - 15,601,569 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl315,560,699 - 15,601,852 (-)EnsemblGRCh38hg38GRCh38
GRCh37315,602,206 - 15,643,076 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36315,577,243 - 15,618,134 (-)NCBINCBI36hg18NCBI36
Celera315,540,467 - 15,581,279 (-)NCBI
Cytogenetic Map3p25.1NCBI
HuRef315,537,616 - 15,578,260 (-)NCBIHuRef
CHM1_1315,553,051 - 15,593,804 (-)NCBICHM1_1
T2T-CHM13v2.0315,563,097 - 15,603,888 (-)NCBI
Hacl1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391431,329,183 - 31,364,201 (-)NCBIGRCm39mm39
GRCm39 Ensembl1431,320,687 - 31,363,243 (-)Ensembl
GRCm381431,607,226 - 31,640,965 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1431,598,730 - 31,641,286 (-)EnsemblGRCm38mm10GRCm38
MGSCv371432,420,412 - 32,454,151 (-)NCBIGRCm37mm9NCBIm37
MGSCv361430,436,235 - 30,469,970 (-)NCBImm8
Celera1427,864,878 - 27,898,614 (-)NCBICelera
Cytogenetic Map14BNCBI
Hacl1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554302,053,640 - 2,096,432 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554302,055,774 - 2,096,260 (-)NCBIChiLan1.0ChiLan1.0
HACL1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1315,823,979 - 15,863,982 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl315,823,979 - 15,863,982 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0315,486,897 - 15,526,552 (-)NCBIMhudiblu_PPA_v0panPan3
LOC608697
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12327,069,676 - 27,188,247 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2327,043,917 - 27,162,593 (+)NCBI
ROS_Cfam_1.02327,572,135 - 27,700,471 (+)NCBI
UMICH_Zoey_3.12327,271,635 - 27,389,865 (+)NCBI
UNSW_CanFamBas_1.02327,333,444 - 27,451,635 (+)NCBI
UU_Cfam_GSD_1.02327,581,893 - 27,700,406 (+)NCBI
Hacl1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118169,684,583 - 169,717,508 (+)NCBI
SpeTri2.0NW_0049364732,823,183 - 2,856,077 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HACL1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl132,766,514 - 2,840,902 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1132,786,007 - 2,840,882 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2132,714,442 - 2,737,983 (-)NCBISscrofa10.2Sscrofa10.2susScr3
HACL1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11560,360,380 - 60,433,528 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl1560,322,722 - 60,433,647 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604133,390,238 - 33,465,437 (-)NCBIVero_WHO_p1.0
Hacl1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248225,079,634 - 5,145,503 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046248225,078,925 - 5,189,253 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
D10Mgh3  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21095,600,334 - 95,600,487 (+)MAPPERmRatBN7.2
Rnor_6.01098,939,209 - 98,939,361NCBIRnor6.0
Rnor_5.01098,640,137 - 98,640,289UniSTSRnor5.0
RGSC_v3.410100,090,302 - 100,090,454UniSTSRGSC3.4
RGSC_v3.410100,090,301 - 100,090,454RGDRGSC3.4
RGSC_v3.110100,104,671 - 100,104,824RGD
Celera1094,250,177 - 94,250,329UniSTS
RH 3.4 Map101080.69RGD
RH 3.4 Map101080.69UniSTS
RH 2.0 Map101218.6RGD
SHRSP x BN Map1077.15RGD
FHH x ACI Map1081.3499RGD
Cytogenetic Map16p16UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1357403Slep4Serum leptin concentration QTL 43.91blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1619639137Rat
1600369Hcas8Hepatocarcinoma susceptibility QTL 8liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)16122477621Rat
631830Alc7Alcohol consumption QTL 72.9consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16126727669Rat
634355Rends4Renal damage susceptibility QTL 40.05kidney blood vessel morphology trait (VT:0000530)organ lesion measurement (CMO:0000677)16126727669Rat
1582235Insul8Insulin level QTL 83.30.0063blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)16126727669Rat
9590151Scort8Serum corticosterone level QTL 88.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)16130836262Rat
2302380Slep6Serum leptin concentration QTL 63.36blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)16132139025Rat
2307172Activ4Activity QTL 43.710.00023locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)16133418960Rat
1354584Despr6Despair related QTL 63.10.0067locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16139533930Rat
2303566Bw90Body weight QTL 902body mass (VT:0001259)body weight (CMO:0000012)16139533930Rat
631561Hcuc2Hepatic copper content QTL 22.8hepatic copper amount (VT:0003065)liver total copper weight (CMO:0001507)16139533949Rat
6903319Bw114Body weight QTL 1142.70.0037body mass (VT:0001259)body weight (CMO:0000012)16143534949Rat
7411664Foco30Food consumption QTL 30110.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)16144588133Rat
1354625Despr7Despair related QTL 73.160.016locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16144977551Rat
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)1638024580345693Rat
2293343Glom16Glomerulus QTL 167.4kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1683223646053497Rat
2312660Bw95Body weight QTL 950.05inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)1683223659492508Rat
2312663Slep9Serum leptin concentration QTL 90.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1683223659492508Rat
2312666Insul16Insulin level QTL 160.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1683223659492508Rat
2312669Stl23Serum triglyceride level QTL 230.01blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1683223659492508Rat
2301406Kidm39Kidney mass QTL 390.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)16285170915884239Rat
1300133Rf24Renal function QTL 243.64blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)16338015021361552Rat
2306902Bp339Blood pressure QTL 3390.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16338015043025077Rat
737825Alc13Alcohol consumption QTL 134.5consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16422760916039848Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)16422760943025077Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16422760943025077Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)16422760943025077Rat
737819Hcas4Hepatocarcinoma susceptibility QTL 44.43liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)16422760946975965Rat
61405Niddm6Non-insulin dependent diabetes mellitus QTL 63.660.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)16422760948972724Rat
61338Bp23Blood pressure QTL 234.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16422760949227609Rat
737826Alc11Alcohol consumption QTL 113.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16422760960252231Rat
61372Bp40Blood pressure QTL 402.2blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)16422773017696785Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:19
Count of miRNA genes:16
Interacting mature miRNAs:19
Transcripts:ENSRNOT00000026588
Prediction methods: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.


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 24 23 23 23 1
Low 3 43 33 18 19 18 8 11 74 12 40 11 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000026588   ⟹   ENSRNOP00000026588
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl166,824,906 - 6,863,015 (-)Ensembl
Rnor_6.0 Ensembl167,714,465 - 7,758,189 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000098301   ⟹   ENSRNOP00000090429
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl166,824,906 - 6,863,015 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000102645   ⟹   ENSRNOP00000090650
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl166,849,713 - 6,863,027 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000108746   ⟹   ENSRNOP00000082285
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl166,827,012 - 6,863,027 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000111010   ⟹   ENSRNOP00000085929
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl166,852,297 - 6,863,027 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000117524   ⟹   ENSRNOP00000091949
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl166,824,906 - 6,863,015 (-)Ensembl
RefSeq Acc Id: NM_053493   ⟹   NP_445945
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2166,826,881 - 6,863,027 (-)NCBI
Rnor_6.0167,720,047 - 7,758,119 (-)NCBI
Rnor_5.0167,646,580 - 7,682,704 (-)NCBI
RGSC_v3.4167,073,038 - 7,108,830 (-)RGD
Celera168,335,334 - 8,371,457 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_445945 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH78697 (Get FASTA)   NCBI Sequence Viewer  
  CAC01252 (Get FASTA)   NCBI Sequence Viewer  
  CAD56981 (Get FASTA)   NCBI Sequence Viewer  
  EDL88941 (Get FASTA)   NCBI Sequence Viewer  
  Q8CHM7 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_445945   ⟸   NM_053493
- UniProtKB: Q8CHM7 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000026588   ⟸   ENSRNOT00000026588
RefSeq Acc Id: ENSRNOP00000085929   ⟸   ENSRNOT00000111010
RefSeq Acc Id: ENSRNOP00000090650   ⟸   ENSRNOT00000102645
RefSeq Acc Id: ENSRNOP00000091949   ⟸   ENSRNOT00000117524
RefSeq Acc Id: ENSRNOP00000082285   ⟸   ENSRNOT00000108746
RefSeq Acc Id: ENSRNOP00000090429   ⟸   ENSRNOT00000098301

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q8CHM7-F1-model_v2 AlphaFold Q8CHM7 1-581 view protein structure

Transcriptome

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

Promoters
RGD ID:13699935
Promoter ID:EPDNEW_R10458
Type:multiple initiation site
Name:Hacl1_1
Description:2-hydroxyacyl-CoA lyase 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_6.0167,758,117 - 7,758,177EPDNEW

Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:619849 AgrOrtholog
BioCyc Gene G2FUF-12137 BioCyc
BioCyc Pathway PWY66-387 [3-methyl-branched fatty acid alpha-oxidation] BioCyc
  PWY66-388 [ceramide degradation by alpha-oxidation] BioCyc
Ensembl Genes ENSRNOG00000019630 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000026588 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000082285.1 UniProtKB/TrEMBL
  ENSRNOP00000085929.1 UniProtKB/TrEMBL
  ENSRNOP00000090429.1 UniProtKB/TrEMBL
  ENSRNOP00000090650.1 UniProtKB/TrEMBL
  ENSRNOP00000091949.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000026588 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000098301.1 UniProtKB/TrEMBL
  ENSRNOT00000102645.1 UniProtKB/TrEMBL
  ENSRNOT00000108746.1 UniProtKB/TrEMBL
  ENSRNOT00000111010.1 UniProtKB/TrEMBL
  ENSRNOT00000117524.1 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7110355 IMAGE-MGC_LOAD
InterPro DHS-like_NAD/FAD-binding_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HACL1-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  THDP-binding UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Thiamin_PyroP_enz_cen_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Thiamin_PyroP_enz_TPP-bd_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TPP_enzyme-bd_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:85255 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93083 IMAGE-MGC_LOAD
NCBI Gene 85255 ENTREZGENE
PANTHER PTHR43710 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam TPP_enzyme_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TPP_enzyme_M UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TPP_enzyme_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Hacl1 PhenoGen
Superfamily-SCOP SSF52467 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF52518 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I6A4D4_RAT UniProtKB/TrEMBL
  A0A8I6ACR4_RAT UniProtKB/TrEMBL
  A0A8I6AE81_RAT UniProtKB/TrEMBL
  A0A8I6G9A1_RAT UniProtKB/TrEMBL
  A0A8I6GIV8_RAT UniProtKB/TrEMBL
  HACL1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-02-22 Hacl1  2-hydroxyacyl-CoA lyase 1  Phyh2  phytanoyl-CoA 2-hydroxylase 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Phyh2  phytanoyl-CoA 2-hydroxylase 2    phytanoyl-Coenzyme A 2-hydroxylase 2  Symbol and Name updated 1299863 APPROVED
2006-03-27 Phyh2  phytanoyl-Coenzyme A 2-hydroxylase 2  Hpcl2  2-hydroxyphytanoyl-Coenzyme A lyase  Symbol and Name updated to reflect Human and Mouse nomenclature 1299863 APPROVED
2005-01-20 Hpcl2  2-hydroxyphytanoyl-Coenzyme A lyase    2-hydroxyphytanoyl-CoA lyase  Name updated 1299863 APPROVED
2002-08-07 Hpcl2  2-hydroxyphytanoyl-CoA lyase      Symbol and Name status set to provisional 70820 PROVISIONAL