Hlcs (holocarboxylase synthetase) - Rat Genome Database

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Gene: Hlcs (holocarboxylase synthetase) Chinchilla lanigera
Analyze
Symbol: Hlcs
Name: holocarboxylase synthetase
RGD ID: 8748237
Description: ENCODES a protein that exhibits biotin binding (ortholog); biotin-[propionyl-CoA-carboxylase (ATP-hydrolyzing)] ligase activity (ortholog); biotin-protein ligase activity (ortholog); INVOLVED IN biotin metabolic process (ortholog); post-translational protein modification (ortholog); response to biotin (ortholog); PARTICIPATES IN biotin metabolic pathway; biotinidase deficiency pathway; holocarboxylase synthetase deficiency pathway; ASSOCIATED WITH amyotrophic lateral sclerosis type 1 (ortholog); autosomal dominant intellectual developmental disorder 7 (ortholog); epilepsy (ortholog); FOUND IN chromatin (ortholog); cytosol (ortholog); nuclear lamina (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: biotin--protein ligase; holocarboxylase synthetase (biotin-(proprionyl-CoA-carboxylase (ATP-hydrolysing)) ligase)
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
NCBI Annotation Information: Annotation category: partial on reference assembly
Position:
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
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
2. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
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
(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
(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
(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


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSCLAT00000006800   ⟹   ENSCLAP00000006690
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495540735,873,826 - 36,074,868 (-)Ensembl
RefSeq Acc Id: ENSCLAT00000006801   ⟹   ENSCLAP00000006691
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495540735,873,826 - 36,058,893 (-)Ensembl
RefSeq Acc Id: XM_013504641   ⟹   XP_013360095
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495540735,870,820 - 36,062,066 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_013360095 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000006690
  ENSCLAP00000006690.1
  ENSCLAP00000006691.1
Reference Protein Sequences
RefSeq Acc Id: XP_013360095   ⟸   XM_013504641
- UniProtKB: A0A8C2V189 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCLAP00000006691   ⟸   ENSCLAT00000006801
RefSeq Acc Id: ENSCLAP00000006690   ⟸   ENSCLAT00000006800
Protein Domains
BPL/LPL catalytic


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000004714 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000006800 ENTREZGENE
  ENSCLAT00000006800.1 UniProtKB/TrEMBL
  ENSCLAT00000006801.1 UniProtKB/TrEMBL
InterPro aa-tRNA-synth_II/BPL/LPL UniProtKB/TrEMBL
  Biotin_CoA_COase_ligase UniProtKB/TrEMBL
  BPL_C UniProtKB/TrEMBL
  BPL_LPL_catalytic UniProtKB/TrEMBL
NCBI Gene Hlcs ENTREZGENE
PANTHER BIOTIN PROTEIN LIGASE UniProtKB/TrEMBL
  BIOTIN--PROTEIN LIGASE UniProtKB/TrEMBL
Pfam BPL_C UniProtKB/TrEMBL
  BPL_LplA_LipB UniProtKB/TrEMBL
PROSITE BPL_LPL_CATALYTIC UniProtKB/TrEMBL
Superfamily-SCOP SSF55681 UniProtKB/TrEMBL
UniProt A0A8C2UW63_CHILA UniProtKB/TrEMBL
  A0A8C2V189 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-08-03 Hlcs  holocarboxylase synthetase    holocarboxylase synthetase (biotin-(proprionyl-CoA-carboxylase (ATP-hydrolysing)) ligase)  Symbol and/or name change 5135510 APPROVED