HPCAL4 (hippocalcin like 4) - Rat Genome Database

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Gene: HPCAL4 (hippocalcin like 4) Canis lupus familiaris
Analyze
Symbol: HPCAL4
Name: hippocalcin like 4
RGD ID: 12306156
Description: ENCODES a protein that exhibits calcium channel regulator activity (ortholog); protein domain specific binding (ortholog); ASSOCIATED WITH Charcot-Marie-Tooth disease dominant intermediate C (ortholog); genetic disease (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: hippocalcin-like protein 4; visinin-like protein 1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1153,196,653 - 3,205,191 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl153,194,653 - 3,201,425 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha153,452,643 - 3,463,915 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0153,314,002 - 3,325,291 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl153,313,655 - 3,325,285 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1153,190,163 - 3,201,450 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0153,251,220 - 3,262,502 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0153,266,783 - 3,278,071 (+)NCBIUU_Cfam_GSD_1.0
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

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
HPCAL4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1153,196,653 - 3,205,191 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl153,194,653 - 3,201,425 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha153,452,643 - 3,463,915 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0153,314,002 - 3,325,291 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl153,313,655 - 3,325,285 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1153,190,163 - 3,201,450 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0153,251,220 - 3,262,502 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0153,266,783 - 3,278,071 (+)NCBIUU_Cfam_GSD_1.0
HPCAL4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38139,678,648 - 39,691,433 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl139,678,648 - 39,691,485 (-)EnsemblGRCh38hg38GRCh38
GRCh37140,144,320 - 40,157,105 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36139,917,232 - 39,929,676 (-)NCBINCBI36Build 36hg18NCBI36
Build 34139,813,738 - 39,826,182NCBI
Celera138,426,386 - 38,438,833 (-)NCBICelera
Cytogenetic Map1p34.2NCBI
HuRef138,263,336 - 38,275,727 (-)NCBIHuRef
CHM1_1140,260,028 - 40,272,527 (-)NCBICHM1_1
T2T-CHM13v2.0139,548,023 - 39,560,837 (-)NCBIT2T-CHM13v2.0
Hpcal4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394123,077,297 - 123,088,492 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl4123,077,020 - 123,088,494 (+)EnsemblGRCm39 Ensembl
GRCm384123,183,504 - 123,194,699 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4123,183,227 - 123,194,701 (+)EnsemblGRCm38mm10GRCm38
MGSCv374122,860,747 - 122,871,942 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv364122,685,807 - 122,697,002 (+)NCBIMGSCv36mm8
Celera4121,515,883 - 121,527,080 (+)NCBICelera
Cytogenetic Map4D2.2NCBI
cM Map457.4NCBI
Hpcal4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85140,739,577 - 140,751,529 (+)NCBIGRCr8
mRatBN7.25135,454,477 - 135,466,417 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5135,454,540 - 135,466,416 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5138,161,114 - 138,168,988 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05139,931,081 - 139,938,951 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05139,938,218 - 139,946,092 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05140,870,127 - 140,882,242 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5140,870,140 - 140,882,244 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05144,660,294 - 144,672,321 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45142,490,462 - 142,498,359 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.15142,495,687 - 142,503,585 (+)NCBI
Celera5133,994,080 - 134,001,954 (+)NCBICelera
Cytogenetic Map5q36NCBI
Hpcal4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545217,193,242 - 17,205,603 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495545217,193,505 - 17,205,174 (-)NCBIChiLan1.0ChiLan1.0
HPCAL4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21187,130,106 - 187,143,251 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11186,267,798 - 186,280,942 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0138,969,006 - 38,982,080 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1140,295,463 - 40,308,469 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl140,295,463 - 40,308,469 (-)Ensemblpanpan1.1panPan2
Hpcal4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505855,736,757 - 55,743,458 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647421,561,518 - 21,568,291 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647421,561,544 - 21,568,230 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HPCAL4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl695,502,684 - 95,515,871 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1695,502,679 - 95,515,892 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2688,590,972 - 88,604,172 (-)NCBISscrofa10.2Sscrofa10.2susScr3
HPCAL4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12093,287,035 - 93,298,310 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2093,283,894 - 93,297,093 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603323,626,844 - 23,639,378 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Hpcal4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476422,173,821 - 22,185,780 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462476422,173,924 - 22,185,790 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in HPCAL4
68 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 exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue
High
Medium 6
Low 5 6 5 1 6 8 1 2
Below cutoff 5 16 6 1 6 6 5 9 4

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_005628898 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038451959 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038451960 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038495450 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038495451 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038495452 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038557803 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038557804 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038557805 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038621676 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038621677 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038621678 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038687459 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038687460 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038687461 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_844587 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AAEX04000015 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAHUQ010000160 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAQRD010000020 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAUVH010000372 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  REHQ01000015 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSCAFT00000046898   ⟹   ENSCAFP00000040751
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl153,198,091 - 3,201,425 (+)Ensembl
RefSeq Acc Id: ENSCAFT00000075632   ⟹   ENSCAFP00000058860
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl153,194,653 - 3,201,425 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845020703   ⟹   ENSCAFP00845016236
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl153,313,655 - 3,325,285 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845020714   ⟹   ENSCAFP00845016246
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl153,314,014 - 3,325,279 (+)Ensembl
RefSeq Acc Id: XM_038451959   ⟹   XP_038307887
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha153,452,643 - 3,463,915 (+)NCBI
RefSeq Acc Id: XM_038451960   ⟹   XP_038307888
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha153,452,674 - 3,463,915 (+)NCBI
RefSeq Acc Id: XM_038495450   ⟹   XP_038351378
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1153,190,163 - 3,201,450 (+)NCBI
RefSeq Acc Id: XM_038495451   ⟹   XP_038351379
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1153,190,194 - 3,201,450 (+)NCBI
RefSeq Acc Id: XM_038495452   ⟹   XP_038351380
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1153,190,194 - 3,201,450 (+)NCBI
RefSeq Acc Id: XM_038557803   ⟹   XP_038413731
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0153,266,783 - 3,278,071 (+)NCBI
RefSeq Acc Id: XM_038557804   ⟹   XP_038413732
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0153,266,814 - 3,278,071 (+)NCBI
RefSeq Acc Id: XM_038557805   ⟹   XP_038413733
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0153,266,814 - 3,278,071 (+)NCBI
RefSeq Acc Id: XM_038621676   ⟹   XP_038477604
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0153,251,220 - 3,262,502 (+)NCBI
RefSeq Acc Id: XM_038621677   ⟹   XP_038477605
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0153,251,251 - 3,262,502 (+)NCBI
RefSeq Acc Id: XM_038621678   ⟹   XP_038477606
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0153,251,251 - 3,262,502 (+)NCBI
RefSeq Acc Id: XM_038687459   ⟹   XP_038543387
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0153,314,002 - 3,325,291 (+)NCBI
RefSeq Acc Id: XM_038687460   ⟹   XP_038543388
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0153,314,033 - 3,325,291 (+)NCBI
RefSeq Acc Id: XM_038687461   ⟹   XP_038543389
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0153,314,033 - 3,325,291 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: ENSCAFP00000058860   ⟸   ENSCAFT00000075632
RefSeq Acc Id: ENSCAFP00000040751   ⟸   ENSCAFT00000046898
RefSeq Acc Id: XP_038351378   ⟸   XM_038495450
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038351379   ⟸   XM_038495451
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038351380   ⟸   XM_038495452
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038477604   ⟸   XM_038621676
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038477605   ⟸   XM_038621677
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038477606   ⟸   XM_038621678
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038543387   ⟸   XM_038687459
- Peptide Label: isoform X1
- UniProtKB: A0A8C0SPT5 (UniProtKB/TrEMBL),   A0A8I3NA27 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038543388   ⟸   XM_038687460
- Peptide Label: isoform X2
- UniProtKB: A0A8C0JSN2 (UniProtKB/TrEMBL),   A0A8I3NEB4 (UniProtKB/TrEMBL),   A0A8P0PHP4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038543389   ⟸   XM_038687461
- Peptide Label: isoform X2
- UniProtKB: A0A8C0JSN2 (UniProtKB/TrEMBL),   A0A8I3NEB4 (UniProtKB/TrEMBL),   A0A8P0PHP4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038307887   ⟸   XM_038451959
- Peptide Label: isoform X1
- UniProtKB: A0A8C0SPT5 (UniProtKB/TrEMBL),   A0A8I3NA27 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038307888   ⟸   XM_038451960
- Peptide Label: isoform X2
- UniProtKB: A0A8C0JSN2 (UniProtKB/TrEMBL),   A0A8I3NEB4 (UniProtKB/TrEMBL),   A0A8P0PHP4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038413731   ⟸   XM_038557803
- Peptide Label: isoform X1
- UniProtKB: A0A8C0SPT5 (UniProtKB/TrEMBL),   A0A8I3NA27 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038413732   ⟸   XM_038557804
- Peptide Label: isoform X2
- UniProtKB: A0A8C0JSN2 (UniProtKB/TrEMBL),   A0A8I3NEB4 (UniProtKB/TrEMBL),   A0A8P0PHP4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038413733   ⟸   XM_038557805
- Peptide Label: isoform X2
- UniProtKB: A0A8C0JSN2 (UniProtKB/TrEMBL),   A0A8I3NEB4 (UniProtKB/TrEMBL),   A0A8P0PHP4 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCAFP00845016236   ⟸   ENSCAFT00845020703
RefSeq Acc Id: ENSCAFP00845016246   ⟸   ENSCAFT00845020714
Protein Domains
EF-hand


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000030867 Ensembl
  ENSCAFG00000052410 UniProtKB/TrEMBL
  ENSCAFG00030020021 UniProtKB/TrEMBL
  ENSCAFG00040015119 UniProtKB/TrEMBL
  ENSCAFG00845011679 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000099764.1 UniProtKB/TrEMBL
  ENSCAFT00000103632.1 UniProtKB/TrEMBL
  ENSCAFT00030036775.1 UniProtKB/TrEMBL
  ENSCAFT00040027861.1 UniProtKB/TrEMBL
  ENSCAFT00845020703 ENTREZGENE
  ENSCAFT00845020703.1 UniProtKB/TrEMBL
  ENSCAFT00845020714 ENTREZGENE
  ENSCAFT00845020714.1 UniProtKB/TrEMBL
Gene3D-CATH EF-hand UniProtKB/TrEMBL
InterPro EF-hand-dom_pair UniProtKB/TrEMBL
  EF_Hand_1_Ca_BS UniProtKB/TrEMBL
  EF_hand_dom UniProtKB/TrEMBL
  Recoverin UniProtKB/TrEMBL
NCBI Gene HPCAL4 ENTREZGENE
PANTHER PTHR23055 UniProtKB/TrEMBL
  PTHR23055:SF84 UniProtKB/TrEMBL
Pfam EF-hand_1 UniProtKB/TrEMBL
  EF-hand_7 UniProtKB/TrEMBL
PRINTS RECOVERIN UniProtKB/TrEMBL
PROSITE EF_HAND_1 UniProtKB/TrEMBL
  EF_HAND_2 UniProtKB/TrEMBL
SMART EFh UniProtKB/TrEMBL
Superfamily-SCOP SSF47473 UniProtKB/TrEMBL
UniProt A0A8C0JSN2 ENTREZGENE
  A0A8C0SPT5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3NA27 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3NEB4 ENTREZGENE, UniProtKB/TrEMBL
  A0A8P0PHP4 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:41769 ENTREZGENE