Hlcs (holocarboxylase synthetase) - Rat Genome Database

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Gene: Hlcs (holocarboxylase synthetase) Rattus norvegicus
Analyze
Symbol: Hlcs
Name: holocarboxylase synthetase
RGD ID: 1565360
Description: Enables biotin-[propionyl-CoA-carboxylase (ATP-hydrolyzing)] ligase activity and identical protein binding activity. Involved in response to biotin. Predicted to be located in cytosol; nuclear lamina; and nuclear matrix. Predicted to be part of chromatin. Predicted to be active in cytoplasm. Human ortholog(s) of this gene implicated in holocarboxylase synthetase deficiency. Orthologous to human HLCS (holocarboxylase synthetase); PARTICIPATES IN biotin metabolic pathway; biotinidase deficiency pathway; holocarboxylase synthetase deficiency pathway; INTERACTS WITH 6-propyl-2-thiouracil; amphetamine; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: biotin--protein ligase; holocarboxylase synthetase (biotin- [propriony-Coenzyme A-carboxylase (ATP-hydrolysing)] ligase); holocarboxylase synthetase (biotin-(proprionyl-CoA-carboxylase (ATP-hydrolysing)) ligase); holocarboxylase synthetase (biotin-(proprionyl-Coenzyme A-carboxylase (ATP-hydrolysing)) ligase); LOC288240; RGD1565360; similar to homolog of Human holocarboxylase synthetase gene HLCS
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
GRCr81146,925,491 - 47,123,111 (-)NCBIGRCr8
mRatBN7.21133,455,806 - 33,635,197 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1133,455,809 - 33,624,222 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.01134,357,372 - 34,537,798 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1134,352,287 - 34,526,931 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01137,944,545 - 38,122,589 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41134,382,010 - 34,539,032 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1134,813,786 - 34,994,033 (+)NCBICelera
Cytogenetic Map11q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
2,3,4,5-tetrachlorophenol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
3-hydroxybenzoic acid  (ISO)
4-hydroxybenzoic acid  (ISO)
5-aza-2'-deoxycytidine  (ISO)
6-propyl-2-thiouracil  (EXP)
acetylsalicylic acid  (ISO)
aflatoxin B1  (ISO)
amphetamine  (EXP)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzo[e]pyrene  (ISO)
bisphenol A  (EXP,ISO)
C60 fullerene  (EXP)
caffeine  (ISO)
CGP 52608  (ISO)
chlorogenic acid  (ISO)
chlorpyrifos  (ISO)
choline  (ISO)
chromium(6+)  (ISO)
cis-caffeic acid  (ISO)
citric acid  (ISO)
copper(II) sulfate  (ISO)
coumarin  (ISO)
Cuprizon  (EXP)
cyanidin cation  (ISO)
ellagic acid  (ISO)
epoxiconazole  (ISO)
ferulic acid  (ISO)
flutamide  (EXP)
folic acid  (ISO)
FR900359  (ISO)
fumaric acid  (ISO)
gallic acid  (ISO)
glycidol  (EXP)
glyphosate  (EXP)
hydrogen peroxide  (ISO)
indole-3-methanol  (EXP)
isotretinoin  (ISO)
ivermectin  (ISO)
L-ascorbic acid  (ISO)
L-methionine  (ISO)
lead diacetate  (EXP)
menadione  (ISO)
methapyrilene  (EXP,ISO)
Monobutylphthalate  (EXP)
N,N-diethyl-m-toluamide  (EXP)
nefazodone  (EXP)
perfluorooctane-1-sulfonic acid  (ISO)
permethrin  (EXP)
phenobarbital  (ISO)
pirinixic acid  (ISO)
potassium chromate  (ISO)
quercetin  (ISO)
resveratrol  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
sulindac  (ISO)
sunitinib  (ISO)
thapsigargin  (ISO)
trans-caffeic acid  (ISO)
trans-piceid  (ISO)
trichloroethene  (EXP)
trichostatin A  (ISO)
triphenyl phosphate  (EXP,ISO)
urethane  (ISO)
valdecoxib  (EXP)
valproic acid  (ISO)

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. 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. Clinical findings and biochemical and molecular analysis of four patients with holocarboxylase synthetase deficiency. Morrone A, etal., Am J Med Genet 2002 Jul 22;111(1):10-8.
3. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
4. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
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. From an inborn error patient to a search for regulatory meaning: a biotin conducted voyage. Velazquez-Arellano A Mol Genet Metab. 2006 Mar;87(3):194-7. Epub 2005 Dec 15.
10. Biotin holocarboxylase synthetase: purification from rat liver cytosol and some properties. Xia WL, etal., Biochem Mol Biol Int. 1994 Sep;34(2):225-32.
Additional References at PubMed
PMID:7842009   PMID:9630604   PMID:14613969   PMID:14651853   PMID:16780588   PMID:17904341   PMID:18429047   PMID:19157941  


Genomics

Comparative Map Data
Hlcs
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81146,925,491 - 47,123,111 (-)NCBIGRCr8
mRatBN7.21133,455,806 - 33,635,197 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1133,455,809 - 33,624,222 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.01134,357,372 - 34,537,798 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1134,352,287 - 34,526,931 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01137,944,545 - 38,122,589 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41134,382,010 - 34,539,032 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1134,813,786 - 34,994,033 (+)NCBICelera
Cytogenetic Map11q11NCBI
HLCS
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382136,748,625 - 36,990,211 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2136,748,626 - 36,990,236 (-)EnsemblGRCh38hg38GRCh38
GRCh372138,120,926 - 38,362,511 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362137,045,059 - 37,284,373 (-)NCBINCBI36Build 36hg18NCBI36
Build 342137,045,058 - 37,284,373NCBI
Celera2123,321,570 - 23,560,921 (-)NCBICelera
Cytogenetic Map21q22.13ENTREZGENE
HuRef2123,599,006 - 23,838,349 (-)NCBIHuRef
CHM1_12137,684,363 - 37,923,921 (-)NCBICHM1_1
T2T-CHM13v2.02135,130,819 - 35,372,426 (-)NCBIT2T-CHM13v2.0
Hlcs
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391693,930,054 - 94,116,098 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1693,929,741 - 94,114,430 (-)EnsemblGRCm39 Ensembl
GRCm381694,129,306 - 94,315,239 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1694,128,882 - 94,313,571 (-)EnsemblGRCm38mm10GRCm38
MGSCv371694,350,912 - 94,509,463 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361694,239,207 - 94,396,654 (-)NCBIMGSCv36mm8
Celera1695,215,800 - 95,374,528 (-)NCBICelera
Cytogenetic Map16C4NCBI
cM Map1655.12NCBI
Hlcs
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540735,873,826 - 36,074,868 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540735,870,820 - 36,062,066 (-)NCBIChiLan1.0ChiLan1.0
HLCS
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22232,865,592 - 33,102,662 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12127,723,219 - 27,962,965 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02123,112,477 - 23,352,121 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12136,467,690 - 36,710,981 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2136,470,872 - 36,655,688 (-)Ensemblpanpan1.1panPan2
HLCS
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13131,934,796 - 32,159,866 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3131,937,087 - 32,150,861 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3130,996,015 - 31,222,017 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03131,237,740 - 31,464,058 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3131,239,237 - 31,441,170 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13131,106,054 - 31,331,974 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03131,119,760 - 31,344,999 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03131,609,253 - 31,835,500 (-)NCBIUU_Cfam_GSD_1.0
Hlcs
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440497131,491,532 - 31,641,006 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365005,827,299 - 5,975,439 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365005,827,213 - 5,976,457 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HLCS
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13200,405,064 - 200,607,748 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113200,406,395 - 200,618,967 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213210,481,824 - 210,683,009 (-)NCBISscrofa10.2Sscrofa10.2susScr3
HLCS
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1280,729,064 - 80,973,188 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl280,732,210 - 80,954,071 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660548,571,834 - 8,815,978 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Hlcs
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474526,675,837 - 26,847,415 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474526,662,927 - 26,850,236 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Hlcs
943 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:87
Count of miRNA genes:81
Interacting mature miRNAs:85
Transcripts:ENSRNOT00000002291
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
1300147Bp187Blood pressure QTL 1873.67arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)11169446234Rat
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111897620886241447Rat
1598842Glom10Glomerulus QTL 103.4kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)11135331169Rat
8694376Bw156Body weight QTL 1562.250.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
724517Uae18Urinary albumin excretion QTL 183.7urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)111647204744285911Rat
10058952Gmadr6Adrenal mass QTL 62.290.0072adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)112295940367959403Rat
1300130Rf20Renal function QTL 204.44kidney glomerulus integrity trait (VT:0010546)kidney glomerulus diameter (CMO:0001166)112952841860324829Rat
1558659Tescar1Testicular tumor resistance QTL 13.9testis integrity trait (VT:0010572)percentage of study population developing testis tumors during a period of time (CMO:0001261)11104193166113562Rat
2298551Neuinf10Neuroinflammation QTL 103.7nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)113123913478851519Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112767241082846715Rat
9589032Epfw10Epididymal fat weight QTL 109.290.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)112328045668280456Rat
9590313Scort20Serum corticosterone level QTL 206.510.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)112328045668280456Rat
8694424Bw162Body weight QTL 1623.80.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
1300110Stl7Serum triglyceride level QTL 74.64blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)112952841882566702Rat
1641927Alcrsp10Alcohol response QTL 10alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)11843667453436674Rat

Markers in Region
D11Got25  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21133,537,060 - 33,537,232 (+)MAPPERmRatBN7.2
Rnor_6.01134,438,907 - 34,439,078NCBIRnor6.0
Rnor_5.01138,025,317 - 38,025,488UniSTSRnor5.0
RGSC_v3.41134,463,755 - 34,463,927RGDRGSC3.4
RGSC_v3.41134,463,756 - 34,463,927UniSTSRGSC3.4
RGSC_v3.11134,519,998 - 34,520,170RGD
Celera1134,912,579 - 34,912,750UniSTS
RH 2.0 Map11390.7RGD
Cytogenetic Map11q11UniSTS
D11Got19  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21133,546,593 - 33,546,787 (+)MAPPERmRatBN7.2
Rnor_6.01134,448,888 - 34,449,081NCBIRnor6.0
Rnor_5.01138,034,663 - 38,034,856UniSTSRnor5.0
RGSC_v3.41134,473,064 - 34,473,259RGDRGSC3.4
RGSC_v3.41134,473,066 - 34,473,259UniSTSRGSC3.4
RGSC_v3.11134,529,307 - 34,529,502RGD
Celera1134,903,023 - 34,903,216UniSTS
RH 2.0 Map11396.1RGD
Cytogenetic Map11q11UniSTS
BE106240  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21133,623,461 - 33,623,676 (+)MAPPERmRatBN7.2
Rnor_6.01134,525,898 - 34,526,112NCBIRnor6.0
Rnor_5.01138,111,178 - 38,111,392UniSTSRnor5.0
RGSC_v3.41134,550,149 - 34,550,363UniSTSRGSC3.4
Celera1134,826,150 - 34,826,364UniSTS
RH 3.4 Map11250.99UniSTS
Cytogenetic Map11q11UniSTS
BF397968  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21133,477,949 - 33,478,125 (+)MAPPERmRatBN7.2
Rnor_6.01134,379,253 - 34,379,428NCBIRnor6.0
Rnor_5.01137,966,299 - 37,966,474UniSTSRnor5.0
RGSC_v3.41134,402,924 - 34,403,099UniSTSRGSC3.4
Celera1134,972,042 - 34,972,217UniSTS
Cytogenetic Map11q11UniSTS
RH138262  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21133,502,198 - 33,502,415 (+)MAPPERmRatBN7.2
Rnor_6.01134,403,454 - 34,403,670NCBIRnor6.0
Rnor_5.01137,990,115 - 37,990,331UniSTSRnor5.0
RGSC_v3.41134,427,811 - 34,428,027UniSTSRGSC3.4
Celera1134,947,605 - 34,947,821UniSTS
Cytogenetic Map11q11UniSTS
G67818  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21133,458,617 - 33,458,965 (+)MAPPERmRatBN7.2
Rnor_6.01134,360,184 - 34,360,531NCBIRnor6.0
Rnor_5.01137,947,357 - 37,947,704UniSTSRnor5.0
RGSC_v3.41134,382,039 - 34,382,386UniSTSRGSC3.4
Celera1134,990,874 - 34,991,221UniSTS
Cytogenetic Map11q11UniSTS
BQ196240  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21133,560,284 - 33,560,456 (+)MAPPERmRatBN7.2
Rnor_6.01134,462,579 - 34,462,750NCBIRnor6.0
Rnor_5.01138,048,354 - 38,048,525UniSTSRnor5.0
RGSC_v3.41134,486,756 - 34,486,927UniSTSRGSC3.4
Celera1134,889,357 - 34,889,528UniSTS
RH 3.4 Map1697.8UniSTS
Cytogenetic Map11q11UniSTS
STS-Z41140  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.04113,141,406 - 113,142,518NCBIRnor6.0
Celera1134,914,413 - 34,915,801UniSTS
Cytogenetic Map11q11UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001427024 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001427025 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_001054618 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006221085 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006221086 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006221087 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006221088 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006248111 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006248112 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006248114 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008768611 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008768612 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008776293 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598095 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017604283 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088791 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088792 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088794 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088795 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088798 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063270412 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063270413 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063270414 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063270415 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063270416 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_221630 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_010055942 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide CH474083 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000011 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000002291   ⟹   ENSRNOP00000002291
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1133,459,473 - 33,624,222 (-)Ensembl
Rnor_6.0 Ensembl1134,352,287 - 34,526,931 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000099472   ⟹   ENSRNOP00000089138
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1133,455,809 - 33,612,803 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000099969   ⟹   ENSRNOP00000090797
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1133,459,175 - 33,612,803 (-)Ensembl
RefSeq Acc Id: NM_001427024   ⟹   NP_001413953
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81146,925,491 - 47,082,038 (-)NCBI
RefSeq Acc Id: NM_001427025   ⟹   NP_001413954
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81146,925,491 - 47,093,893 (-)NCBI
RefSeq Acc Id: XM_039088791   ⟹   XP_038944719
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81146,925,491 - 47,104,905 (-)NCBI
mRatBN7.21133,455,806 - 33,635,192 (-)NCBI
RefSeq Acc Id: XM_039088792   ⟹   XP_038944720
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81146,925,491 - 47,104,913 (-)NCBI
mRatBN7.21133,455,806 - 33,635,197 (-)NCBI
RefSeq Acc Id: XM_039088794   ⟹   XP_038944722
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81146,925,491 - 47,104,909 (-)NCBI
mRatBN7.21133,455,806 - 33,635,193 (-)NCBI
RefSeq Acc Id: XM_039088795   ⟹   XP_038944723
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81146,925,491 - 47,082,077 (-)NCBI
mRatBN7.21133,455,806 - 33,612,406 (-)NCBI
RefSeq Acc Id: XM_039088798   ⟹   XP_038944726
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81146,925,491 - 47,094,121 (-)NCBI
mRatBN7.21133,455,806 - 33,624,471 (-)NCBI
RefSeq Acc Id: XM_063270412   ⟹   XP_063126482
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81146,925,491 - 47,082,077 (-)NCBI
RefSeq Acc Id: XM_063270413   ⟹   XP_063126483
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81146,925,491 - 47,104,917 (-)NCBI
RefSeq Acc Id: XM_063270414   ⟹   XP_063126484
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81146,925,491 - 47,123,111 (-)NCBI
RefSeq Acc Id: XM_063270415   ⟹   XP_063126485
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81146,925,491 - 47,123,111 (-)NCBI
RefSeq Acc Id: XM_063270416   ⟹   XP_063126486
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81146,925,491 - 47,094,123 (-)NCBI
RefSeq Acc Id: XR_010055942
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81146,935,819 - 47,104,920 (-)NCBI
Ensembl Acc Id: ENSRNOP00000002291   ⟸   ENSRNOT00000002291
RefSeq Acc Id: XP_038944720   ⟸   XM_039088792
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038944722   ⟸   XM_039088794
- Peptide Label: isoform X4
- UniProtKB: A0A8I6AAD0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038944719   ⟸   XM_039088791
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038944726   ⟸   XM_039088798
- Peptide Label: isoform X7
- UniProtKB: A0A8I6AAD0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038944723   ⟸   XM_039088795
- Peptide Label: isoform X6
- UniProtKB: A0A8I6AAD0 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000089138   ⟸   ENSRNOT00000099472
Ensembl Acc Id: ENSRNOP00000090797   ⟸   ENSRNOT00000099969
RefSeq Acc Id: XP_063126485   ⟸   XM_063270415
- Peptide Label: isoform X7
- UniProtKB: A0A8I6AAD0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063126484   ⟸   XM_063270414
- Peptide Label: isoform X7
- UniProtKB: A0A8I6AAD0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063126483   ⟸   XM_063270413
- Peptide Label: isoform X5
- UniProtKB: A0A8I6AAD0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063126486   ⟸   XM_063270416
- Peptide Label: isoform X8
- UniProtKB: A0A8I6AAD0 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001413954   ⟸   NM_001427025
- Peptide Label: isoform 2
- UniProtKB: A0A8I6AAD0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063126482   ⟸   XM_063270412
- Peptide Label: isoform X3
RefSeq Acc Id: NP_001413953   ⟸   NM_001427024
- Peptide Label: isoform 1
- UniProtKB: A0A8I6A968 (UniProtKB/TrEMBL),   A6KPY1 (UniProtKB/TrEMBL)
Protein Domains
BPL/LPL catalytic

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4AA38-F1-model_v2 AlphaFold D4AA38 1-672 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1565360 AgrOrtholog
BioCyc Gene G2FUF-21772 BioCyc
BioCyc Pathway PWY0-1264 [biotin-carboxyl carrier protein assembly] BioCyc
BioCyc Pathway Image PWY0-1264 BioCyc
Ensembl Genes ENSRNOG00000001686 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000002291.7 UniProtKB/TrEMBL
  ENSRNOT00000099472.1 UniProtKB/TrEMBL
  ENSRNOT00000099969.1 UniProtKB/TrEMBL
InterPro aa-tRNA-synth_II/BPL/LPL UniProtKB/TrEMBL
  Biotin_CoA_COase_ligase UniProtKB/TrEMBL
  BPL_C UniProtKB/TrEMBL
  BPL_LipA_LipB UniProtKB/TrEMBL
NCBI Gene 288240 ENTREZGENE
PANTHER BIOTIN PROTEIN LIGASE UniProtKB/TrEMBL
  BIOTIN--PROTEIN LIGASE UniProtKB/TrEMBL
Pfam BPL_C UniProtKB/TrEMBL
  BPL_LipA_LipB UniProtKB/TrEMBL
PhenoGen Hlcs PhenoGen
PROSITE BPL_LPL_CATALYTIC UniProtKB/TrEMBL
RatGTEx ENSRNOG00000001686 RatGTEx
Superfamily-SCOP SSF55681 UniProtKB/TrEMBL
UniProt A0A8I6A968 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6AAD0 ENTREZGENE, UniProtKB/TrEMBL
  A6KPY1 ENTREZGENE, UniProtKB/TrEMBL
  D4AA38_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-01-20 Hlcs  holocarboxylase synthetase  Hlcs  holocarboxylase synthetase (biotin-(proprionyl-CoA-carboxylase (ATP-hydrolysing)) ligase)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-08-02 Hlcs  holocarboxylase synthetase (biotin-(proprionyl-CoA-carboxylase (ATP-hydrolysing)) ligase)  Hlcs  holocarboxylase synthetase (biotin-(proprionyl-Coenzyme A-carboxylase (ATP-hydrolysing)) ligase)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-24 Hlcs  holocarboxylase synthetase (biotin-(proprionyl-Coenzyme A-carboxylase (ATP-hydrolysing)) ligase)  Hlcs  holocarboxylase synthetase (biotin- [propriony-Coenzyme A-carboxylase (ATP-hydrolysing)] ligase)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-07 Hlcs  holocarboxylase synthetase (biotin- [propriony-Coenzyme A-carboxylase (ATP-hydrolysing)] ligase)  RGD1565360_predicted  similar to homolog of Human holocarboxylase synthetase gene HLCS (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1565360_predicted  similar to homolog of Human holocarboxylase synthetase gene HLCS (predicted)  LOC288240  similar to homolog of Human holocarboxylase synthetase gene HLCS  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC288240  similar to homolog of Human holocarboxylase synthetase gene HLCS      Symbol and Name status set to provisional 70820 PROVISIONAL