Human Gene HPCAL4 (ENST00000372844.8) Description and Page Index
  Description: Homo sapiens hippocalcin like 4 (HPCAL4), transcript variant 1, mRNA. (from RefSeq NM_016257)
RefSeq Summary (NM_016257): The protein encoded by this gene is highly similar to human hippocalcin protein and hippocalcin like-1 protein. It also has similarity to rat neural visinin-like Ca2+-binding protein-type 1 and 2 proteins. This encoded protein may be involved in the calcium-dependent regulation of rhodopsin phosphorylation. The transcript of this gene has multiple polyadenylation sites. Alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Sep 2013].
Gencode Transcript: ENST00000372844.8
Gencode Gene: ENSG00000116983.13
Transcript (Including UTRs)
   Position: hg38 chr1:39,678,648-39,691,433 Size: 12,786 Total Exon Count: 4 Strand: -
Coding Region
   Position: hg38 chr1:39,682,536-39,684,603 Size: 2,068 Coding Exon Count: 3 

Page IndexSequence and LinksUniProtKB CommentsMalaCardsCTDRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesMethods
Data last updated: 2019-09-04

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:39,678,648-39,691,433)mRNA (may differ from genome)Protein (191 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsHGNC
HPRDLynxMGIneXtProtPubMedStanford SOURCE
UniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: HPCL4_HUMAN
DESCRIPTION: RecName: Full=Hippocalcin-like protein 4; Short=HLP4;
FUNCTION: May be involved in the calcium-dependent regulation of rhodopsin phosphorylation (By similarity).
MISCELLANEOUS: Probably binds two or three calcium ions (By similarity).
SIMILARITY: Belongs to the recoverin family.
SIMILARITY: Contains 4 EF-hand domains.

-  MalaCards Disease Associations
  MalaCards Gene Search: HPCAL4
Diseases sorted by gene-association score: holoprosencephaly 3 (2)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 79.74 RPKM in Brain - Anterior cingulate cortex (BA24)
Total median expression: 665.30 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -62.00136-0.456 Picture PostScript Text
3' UTR -1327.603888-0.341 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR018248 - EF-hand
IPR011992 - EF-hand-like_dom
IPR018247 - EF_Hand_1_Ca_BS
IPR018249 - EF_HAND_2
IPR002048 - EF_hand_Ca-bd
IPR001125 - Recoverin

Pfam Domains:
PF00036 - EF hand

ModBase Predicted Comparative 3D Structure on Q9UM19
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005246 calcium channel regulator activity
GO:0005509 calcium ion binding
GO:0005515 protein binding
GO:0008022 protein C-terminus binding
GO:0019904 protein domain specific binding
GO:0046872 metal ion binding

Biological Process:
GO:0007165 signal transduction
GO:0007417 central nervous system development

Cellular Component:
GO:0005622 intracellular


-  Descriptions from all associated GenBank mRNAs
  BC030827 - Homo sapiens hippocalcin like 4, mRNA (cDNA clone MGC:26229 IMAGE:4811834), complete cds.
AL136591 - Homo sapiens mRNA; cDNA DKFZp761G122 (from clone DKFZp761G122).
JD291500 - Sequence 272524 from Patent EP1572962.
JD135316 - Sequence 116340 from Patent EP1572962.
JD245205 - Sequence 226229 from Patent EP1572962.
JD542334 - Sequence 523358 from Patent EP1572962.
JD066503 - Sequence 47527 from Patent EP1572962.
JD091913 - Sequence 72937 from Patent EP1572962.
JD417532 - Sequence 398556 from Patent EP1572962.
JD450711 - Sequence 431735 from Patent EP1572962.
JD392605 - Sequence 373629 from Patent EP1572962.
JD204208 - Sequence 185232 from Patent EP1572962.
JD384040 - Sequence 365064 from Patent EP1572962.
JD223544 - Sequence 204568 from Patent EP1572962.
JD470232 - Sequence 451256 from Patent EP1572962.
JD339080 - Sequence 320104 from Patent EP1572962.
JD040250 - Sequence 21274 from Patent EP1572962.
JD117998 - Sequence 99022 from Patent EP1572962.
JD354113 - Sequence 335137 from Patent EP1572962.
JD164951 - Sequence 145975 from Patent EP1572962.
JD377343 - Sequence 358367 from Patent EP1572962.
JD101149 - Sequence 82173 from Patent EP1572962.
JD515894 - Sequence 496918 from Patent EP1572962.
JD515984 - Sequence 497008 from Patent EP1572962.
JD452538 - Sequence 433562 from Patent EP1572962.
JD074315 - Sequence 55339 from Patent EP1572962.
JD130196 - Sequence 111220 from Patent EP1572962.
JD172793 - Sequence 153817 from Patent EP1572962.
JD103043 - Sequence 84067 from Patent EP1572962.
JD110919 - Sequence 91943 from Patent EP1572962.
JD271621 - Sequence 252645 from Patent EP1572962.
JD235141 - Sequence 216165 from Patent EP1572962.
JD450291 - Sequence 431315 from Patent EP1572962.
JD446246 - Sequence 427270 from Patent EP1572962.
JD161427 - Sequence 142451 from Patent EP1572962.
JD254921 - Sequence 235945 from Patent EP1572962.
JD230317 - Sequence 211341 from Patent EP1572962.
JD376949 - Sequence 357973 from Patent EP1572962.
JD272344 - Sequence 253368 from Patent EP1572962.
JD273167 - Sequence 254191 from Patent EP1572962.
JD318578 - Sequence 299602 from Patent EP1572962.
JD536340 - Sequence 517364 from Patent EP1572962.
JD084453 - Sequence 65477 from Patent EP1572962.
JD427384 - Sequence 408408 from Patent EP1572962.
JD289471 - Sequence 270495 from Patent EP1572962.
JD052004 - Sequence 33028 from Patent EP1572962.
JD081757 - Sequence 62781 from Patent EP1572962.
JD418206 - Sequence 399230 from Patent EP1572962.
JD224480 - Sequence 205504 from Patent EP1572962.
AK294813 - Homo sapiens cDNA FLJ50758 complete cds, moderately similar to Hippocalcin-like protein 4.
JD514524 - Sequence 495548 from Patent EP1572962.
JD463453 - Sequence 444477 from Patent EP1572962.
JD147357 - Sequence 128381 from Patent EP1572962.
JD222384 - Sequence 203408 from Patent EP1572962.
AB001105 - Homo sapiens mRNA for hippocalcin-like protein 4, complete cds.
AK294412 - Homo sapiens cDNA FLJ61110 complete cds, highly similar to Hippocalcin-like protein 4.
JD227428 - Sequence 208452 from Patent EP1572962.
JD322824 - Sequence 303848 from Patent EP1572962.
JD240166 - Sequence 221190 from Patent EP1572962.
JD475930 - Sequence 456954 from Patent EP1572962.
JD563756 - Sequence 544780 from Patent EP1572962.
JD166520 - Sequence 147544 from Patent EP1572962.
JD241514 - Sequence 222538 from Patent EP1572962.
JD270677 - Sequence 251701 from Patent EP1572962.
JD393695 - Sequence 374719 from Patent EP1572962.
JD239891 - Sequence 220915 from Patent EP1572962.
JD055710 - Sequence 36734 from Patent EP1572962.
JD120953 - Sequence 101977 from Patent EP1572962.
JD254370 - Sequence 235394 from Patent EP1572962.
JD227128 - Sequence 208152 from Patent EP1572962.
JD104505 - Sequence 85529 from Patent EP1572962.
JD517122 - Sequence 498146 from Patent EP1572962.
JD102794 - Sequence 83818 from Patent EP1572962.
JD454204 - Sequence 435228 from Patent EP1572962.
JD272467 - Sequence 253491 from Patent EP1572962.
DQ892340 - Synthetic construct clone IMAGE:100004970; FLH185478.01X; RZPDo839B08148D hippocalcin like 4 (HPCAL4) gene, encodes complete protein.
AK312314 - Homo sapiens cDNA, FLJ92621, Homo sapiens hippocalcin like 4 (HPCAL4), mRNA.
KJ898897 - Synthetic construct Homo sapiens clone ccsbBroadEn_08291 HPCAL4 gene, encodes complete protein.
DQ895545 - Synthetic construct Homo sapiens clone IMAGE:100010005; FLH185474.01L; RZPDo839B08147D hippocalcin like 4 (HPCAL4) gene, encodes complete protein.
AM392661 - Synthetic construct Homo sapiens clone IMAGE:100001953 for hypothetical protein (HPCAL4 gene).
AM393588 - Synthetic construct Homo sapiens clone IMAGE:100001670 for hypothetical protein (HPCAL4 gene).
AB489166 - Synthetic construct DNA, clone: pF1KB8297, Homo sapiens HPCAL4 gene for hippocalcin like 4, without stop codon, in Flexi system.
CU689032 - Synthetic construct Homo sapiens gateway clone IMAGE:100020212 5' read HPCAL4 mRNA.
JD406987 - Sequence 388011 from Patent EP1572962.
JD129390 - Sequence 110414 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B2R5U2, D3DPU1, HPCL4_HUMAN, NM_016257, Q5TG97, Q8N611, Q9UM19, uc001cdr.1, uc001cdr.2, uc001cdr.3, uc001cdr.4, uc001cdr.5, uc001cdr.6
UCSC ID: uc001cdr.6
RefSeq Accession: NM_016257
Protein: Q9UM19 (aka HPCL4_HUMAN or HPC4_HUMAN)
CCDS: CCDS441.1

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.