HACD1 (3-hydroxyacyl-CoA dehydratase 1) - Rat Genome Database

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Gene: HACD1 (3-hydroxyacyl-CoA dehydratase 1) Sus scrofa
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Symbol: HACD1
Name: 3-hydroxyacyl-CoA dehydratase 1
RGD ID: 13884112
Description: ENCODES a protein that exhibits enzyme binding (ortholog); hydroxyapatite binding (ortholog); INVOLVED IN cementum mineralization (ortholog); myotube differentiation (ortholog); positive regulation of cell-substrate adhesion (ortholog); ASSOCIATED WITH Congenital Myopathy 11 (ortholog); congenital structural myopathy (ortholog); genetic disease (ortholog); FOUND IN endoplasmic reticulum (inferred); endoplasmic reticulum membrane (inferred); membrane (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: protein tyrosine phosphatase-like (proline instead of catalytic arginine), member A; PTPLA; very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase 1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
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 Ensembl1043,897,162 - 43,929,409 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11043,901,590 - 43,929,441 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21048,592,803 - 48,619,692 (-)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:15679890   PMID:30032202  


Genomics

Comparative Map Data
HACD1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1043,897,162 - 43,929,409 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11043,901,590 - 43,929,441 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21048,592,803 - 48,619,692 (-)NCBISscrofa10.2Sscrofa10.2susScr3
HACD1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381017,589,032 - 17,617,374 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1017,589,032 - 17,617,374 (-)EnsemblGRCh38hg38GRCh38
GRCh371017,631,031 - 17,659,373 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361017,671,964 - 17,699,379 (-)NCBINCBI36Build 36hg18NCBI36
Build 341017,672,275 - 17,699,379NCBI
Celera1017,565,146 - 17,593,075 (-)NCBICelera
Cytogenetic Map10p12.33NCBI
HuRef1017,544,972 - 17,572,460 (-)NCBIHuRef
CHM1_11017,632,313 - 17,659,761 (-)NCBICHM1_1
T2T-CHM13v2.01017,607,536 - 17,635,876 (-)NCBIT2T-CHM13v2.0
Hacd1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39214,031,642 - 14,060,846 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl213,855,093 - 14,060,847 (-)EnsemblGRCm39 Ensembl
GRCm38214,026,831 - 14,056,035 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl213,850,282 - 14,056,135 (-)EnsemblGRCm38mm10GRCm38
MGSCv37213,948,458 - 13,977,662 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36213,944,585 - 13,973,789 (-)NCBIMGSCv36mm8
Celera213,931,573 - 13,960,708 (-)NCBICelera
Cytogenetic Map2A1- A2NCBI
cM Map210.3NCBI
Hacd1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81781,992,284 - 82,014,676 (-)NCBIGRCr8
mRatBN7.21777,081,508 - 77,106,114 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1777,083,740 - 77,106,073 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1780,533,754 - 80,556,385 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01784,369,169 - 84,391,796 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01778,417,074 - 78,439,703 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01781,173,238 - 81,196,012 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1781,173,713 - 81,187,739 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01782,917,839 - 82,940,613 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41788,239,568 - 88,253,571 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1776,417,114 - 76,430,942 (-)NCBICelera
Cytogenetic Map17q12.3NCBI
Hacd1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542910,384,708 - 10,406,945 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542910,394,046 - 10,406,945 (+)NCBIChiLan1.0ChiLan1.0
HACD1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2830,437,852 - 30,465,114 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11030,443,173 - 30,472,403 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01017,911,158 - 17,940,075 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11018,182,727 - 18,196,854 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1018,183,125 - 18,209,361 (-)Ensemblpanpan1.1panPan2
HACD1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1219,362,488 - 19,383,090 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl219,362,403 - 19,383,090 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha216,464,086 - 16,484,685 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0219,652,419 - 19,672,996 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl219,652,098 - 19,674,773 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1216,855,006 - 16,875,380 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0217,690,591 - 17,711,318 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0218,310,361 - 18,330,963 (+)NCBIUU_Cfam_GSD_1.0
Hacd1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934418,233,190 - 18,244,697 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365209,716,224 - 9,727,841 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365209,716,178 - 9,725,949 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HACD1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1917,537,945 - 17,565,831 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl917,536,611 - 17,565,383 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605123,182,977 - 23,210,775 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Hacd1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462479610,295,993 - 10,313,108 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462479610,295,957 - 10,315,222 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in HACD1
1260 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 circulatory system endocrine system hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 2 1 2 1
Low 6 3 3 5 22 2 3 3
Below cutoff 2

Sequence


RefSeq Acc Id: ENSSSCT00000062209   ⟹   ENSSSCP00000034651
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1043,897,162 - 43,929,409 (-)Ensembl
RefSeq Acc Id: XM_013980233   ⟹   XP_013835687
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11043,901,590 - 43,929,441 (-)NCBI
Sequence:
RefSeq Acc Id: XP_013835687   ⟸   XM_013980233
- UniProtKB: A0A286ZSM1 (UniProtKB/TrEMBL),   A0A8D0VNG8 (UniProtKB/TrEMBL),   A0A4X1UAC5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000034651   ⟸   ENSSSCT00000062209


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000038007 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00025026735 UniProtKB/TrEMBL
  ENSSSCG00030013597 UniProtKB/TrEMBL
  ENSSSCG00035013727 UniProtKB/TrEMBL
  ENSSSCG00040025822 UniProtKB/TrEMBL
  ENSSSCG00045027663 UniProtKB/TrEMBL
  ENSSSCG00050060855 UniProtKB/TrEMBL
  ENSSSCG00055011113 UniProtKB/TrEMBL
  ENSSSCG00060039746 UniProtKB/TrEMBL
  ENSSSCG00065004362 UniProtKB/TrEMBL
  ENSSSCG00070015792 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000062209 ENTREZGENE
  ENSSSCT00000062209.3 UniProtKB/TrEMBL
  ENSSSCT00025036167.1 UniProtKB/TrEMBL
  ENSSSCT00030018643.1 UniProtKB/TrEMBL
  ENSSSCT00035017326.1 UniProtKB/TrEMBL
  ENSSSCT00040034442.1 UniProtKB/TrEMBL
  ENSSSCT00045047121.1 UniProtKB/TrEMBL
  ENSSSCT00050082919.1 UniProtKB/TrEMBL
  ENSSSCT00055021808.1 UniProtKB/TrEMBL
  ENSSSCT00060053804.1 UniProtKB/TrEMBL
  ENSSSCT00065005980.1 UniProtKB/TrEMBL
  ENSSSCT00070031006.1 UniProtKB/TrEMBL
InterPro Tyr_Pase-like_PTPLA UniProtKB/TrEMBL
NCBI Gene HACD1 ENTREZGENE
PANTHER PTHR11035 UniProtKB/TrEMBL
  VERY-LONG-CHAIN (3R)-3-HYDROXYACYL-COA DEHYDRATASE 1 UniProtKB/TrEMBL
Pfam PTPLA UniProtKB/TrEMBL
UniProt A0A286ZSM1 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1UAC5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0VNG8 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:96518 ENTREZGENE