LOCUS       NM_002149               1749 bp    mRNA    linear   PRI 20-SEP-2024
DEFINITION  Homo sapiens hippocalcin like 1 (HPCAL1), transcript variant 1,
            mRNA.
ACCESSION   NM_002149
VERSION     NM_002149.4
KEYWORDS    RefSeq; MANE Select.
SOURCE      Homo sapiens (human)
  ORGANISM  Homo sapiens
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
            Catarrhini; Hominidae; Homo.
REFERENCE   1  (bases 1 to 1749)
  AUTHORS   Ma,M., Zeng,G., Li,J., Liang,J., Huang,L., Chen,J. and Lai,J.
  TITLE     Expressional and prognostic value of HPCAL1 in cholangiocarcinoma
            via integrated bioinformatics analyses and experiments
  JOURNAL   Cancer Med 12 (1), 824-836 (2023)
   PUBMED   35645147
  REMARK    GeneRIF: Expressional and prognostic value of HPCAL1 in
            cholangiocarcinoma via integrated bioinformatics analyses and
            experiments.
REFERENCE   2  (bases 1 to 1749)
  AUTHORS   Chen,T., Yuan,Z., Lei,Z., Duan,J., Xue,J., Lu,T., Yan,G., Zhang,L.,
            Liu,Y., Li,Q. and Zhang,Y.
  TITLE     Hippocalcin-Like 1 blunts liver lipid metabolism to suppress
            tumorigenesis via directly targeting RUVBL1-mTOR signaling
  JOURNAL   Theranostics 12 (17), 7450-7464 (2022)
   PUBMED   36438486
  REMARK    GeneRIF: Hippocalcin-Like 1 blunts liver lipid metabolism to
            suppress tumorigenesis via directly targeting RUVBL1-mTOR
            signaling.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 1749)
  AUTHORS   Wang,X., Xie,X., Zhang,Y., Ma,F., Pang,M., Laster,K.V., Li,X.,
            Liu,K., Dong,Z. and Kim,D.J.
  TITLE     Hippocalcin-like 1 is a key regulator of LDHA activation that
            promotes the growth of non-small cell lung carcinoma
  JOURNAL   Cell Oncol (Dordr) 45 (1), 179-191 (2022)
   PUBMED   35102488
  REMARK    GeneRIF: Hippocalcin-like 1 is a key regulator of LDHA activation
            that promotes the growth of non-small cell lung carcinoma.
REFERENCE   4  (bases 1 to 1749)
  AUTHORS   Huttlin,E.L., Bruckner,R.J., Navarrete-Perea,J., Cannon,J.R.,
            Baltier,K., Gebreab,F., Gygi,M.P., Thornock,A., Zarraga,G., Tam,S.,
            Szpyt,J., Gassaway,B.M., Panov,A., Parzen,H., Fu,S., Golbazi,A.,
            Maenpaa,E., Stricker,K., Guha Thakurta,S., Zhang,T., Rad,R.,
            Pan,J., Nusinow,D.P., Paulo,J.A., Schweppe,D.K., Vaites,L.P.,
            Harper,J.W. and Gygi,S.P.
  TITLE     Dual proteome-scale networks reveal cell-specific remodeling of the
            human interactome
  JOURNAL   Cell 184 (11), 3022-3040 (2021)
   PUBMED   33961781
REFERENCE   5  (bases 1 to 1749)
  AUTHORS   Haenig,C., Atias,N., Taylor,A.K., Mazza,A., Schaefer,M.H., Russ,J.,
            Riechers,S.P., Jain,S., Coughlin,M., Fontaine,J.F., Freibaum,B.D.,
            Brusendorf,L., Zenkner,M., Porras,P., Stroedicke,M., Schnoegl,S.,
            Arnsburg,K., Boeddrich,A., Pigazzini,L., Heutink,P., Taylor,J.P.,
            Kirstein,J., Andrade-Navarro,M.A., Sharan,R. and Wanker,E.E.
  TITLE     Interactome Mapping Provides a Network of Neurodegenerative Disease
            Proteins and Uncovers Widespread Protein Aggregation in Affected
            Brains
  JOURNAL   Cell Rep 32 (7), 108050 (2020)
   PUBMED   32814053
REFERENCE   6  (bases 1 to 1749)
  AUTHORS   Braunewell,K., Riederer,P., Spilker,C., Gundelfinger,E.D.,
            Bogerts,B. and Bernstein,H.G.
  TITLE     Abnormal localization of two neuronal calcium sensor proteins,
            visinin-like proteins (vilips)-1 and -3, in neocortical brain areas
            of Alzheimer disease patients
  JOURNAL   Dement Geriatr Cogn Disord 12 (2), 110-116 (2001)
   PUBMED   11173883
  REMARK    GeneRIF: VILIP-3 immunostaining was found to be reduced in
            Alzheimer brains; immunoreactive material was detected in close
            association with amyloid plaques and neurofibrillar tangles,
            typical pathologic hallmarks of AD
REFERENCE   7  (bases 1 to 1749)
  AUTHORS   Spilker,C., Richter,K., Smalla,K.H., Manahan-Vaughan,D.,
            Gundelfinger,E.D. and Braunewell,K.H.
  TITLE     The neuronal EF-hand calcium-binding protein visinin-like protein-3
            is expressed in cerebellar Purkinje cells and shows a
            calcium-dependent membrane association
  JOURNAL   Neuroscience 96 (1), 121-129 (2000)
   PUBMED   10683417
REFERENCE   8  (bases 1 to 1749)
  AUTHORS   Bernstein,H.G., Baumann,B., Danos,P., Diekmann,S., Bogerts,B.,
            Gundelfinger,E.D. and Braunewell,K.H.
  TITLE     Regional and cellular distribution of neural visinin-like protein
            immunoreactivities (VILIP-1 and VILIP-3) in human brain
  JOURNAL   J Neurocytol 28 (8), 655-662 (1999)
   PUBMED   10851344
REFERENCE   9  (bases 1 to 1749)
  AUTHORS   Kobayashi,M., Takamatsu,K., Fujishiro,M., Saitoh,S. and Noguchi,T.
  TITLE     Molecular cloning of a novel calcium-binding protein structurally
            related to hippocalcin from human brain and chromosomal mapping of
            its gene
  JOURNAL   Biochim Biophys Acta 1222 (3), 515-518 (1994)
   PUBMED   8038222
REFERENCE   10 (bases 1 to 1749)
  AUTHORS   Hidaka,H. and Okazaki,K.
  TITLE     Neurocalcin family: a novel calcium-binding protein abundant in
            bovine central nervous system
  JOURNAL   Neurosci Res 16 (2), 73-77 (1993)
   PUBMED   8387172
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from BI603158.1, BC017482.1,
            AC007249.5 and AF070616.1.
            
            On Nov 23, 2018 this sequence version replaced NM_002149.3.
            
            Summary: The protein encoded by this gene is a member of
            neuron-specific calcium-binding proteins family found in the retina
            and brain. It is highly similar to human hippocalcin protein and
            nearly identical to the rat and mouse hippocalcin like-1 proteins.
            It may be involved in the calcium-dependent regulation of rhodopsin
            phosphorylation and may be of relevance for neuronal signalling in
            the central nervous system. Several alternatively spliced
            transcript variants encoding the same protein have been found for
            this gene. [provided by RefSeq, Apr 2012].
            
            Transcript Variant: This variant (1) differs in the 5' UTR compared
            to variant 5. All five variants encode the same protein.
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR3476690.539306.1,
                                           SRR3476690.556154.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000307845.8/ ENSP00000310749.3
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-10                BI603158.1         6-15
            11-1100             BC017482.1         1-1090
            1101-1101           AC007249.5         91538-91538
            1102-1749           AF070616.1         471-1118
FEATURES             Location/Qualifiers
     source          1..1749
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="2"
                     /map="2p25.1"
     gene            1..1749
                     /gene="HPCAL1"
                     /gene_synonym="BDR1; HLP2; VILIP-3"
                     /note="hippocalcin like 1"
                     /db_xref="GeneID:3241"
                     /db_xref="HGNC:HGNC:5145"
                     /db_xref="MIM:600207"
     exon            1..274
                     /gene="HPCAL1"
                     /gene_synonym="BDR1; HLP2; VILIP-3"
                     /inference="alignment:Splign:2.1.0"
     exon            275..360
                     /gene="HPCAL1"
                     /gene_synonym="BDR1; HLP2; VILIP-3"
                     /inference="alignment:Splign:2.1.0"
     exon            361..762
                     /gene="HPCAL1"
                     /gene_synonym="BDR1; HLP2; VILIP-3"
                     /inference="alignment:Splign:2.1.0"
     CDS             385..966
                     /gene="HPCAL1"
                     /gene_synonym="BDR1; HLP2; VILIP-3"
                     /note="visinin-like protein 3; calcium-binding protein
                     BDR-1"
                     /codon_start=1
                     /product="hippocalcin-like protein 1"
                     /protein_id="NP_002140.2"
                     /db_xref="CCDS:CCDS1671.1"
                     /db_xref="GeneID:3241"
                     /db_xref="HGNC:HGNC:5145"
                     /db_xref="MIM:600207"
                     /translation="MGKQNSKLRPEVLQDLRENTEFTDHELQEWYKGFLKDCPTGHLT
                     VDEFKKIYANFFPYGDASKFAEHVFRTFDTNGDGTIDFREFIIALSVTSRGKLEQKLK
                     WAFSMYDLDGNGYISRSEMLEIVQAIYKMVSSVMKMPEDESTPEKRTDKIFRQMDTNN
                     DGKLSLEEFIRGAKSDPSIVRLLQCDPSSASQF"
     exon            763..868
                     /gene="HPCAL1"
                     /gene_synonym="BDR1; HLP2; VILIP-3"
                     /inference="alignment:Splign:2.1.0"
     exon            869..1749
                     /gene="HPCAL1"
                     /gene_synonym="BDR1; HLP2; VILIP-3"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1744..1749
                     /regulatory_class="polyA_signal_sequence"
                     /gene="HPCAL1"
                     /gene_synonym="BDR1; HLP2; VILIP-3"
                     /note="hexamer: AATAAA"
     polyA_site      1749
                     /gene="HPCAL1"
                     /gene_synonym="BDR1; HLP2; VILIP-3"
                     /note="major polyA site"
ORIGIN      
        1 aggcgggccg cggcggcggc gggcagcgga cgggcggact gacgggcgcc tccaccttgc
       61 tccctccctg gctgccggct tccttttgtc tttctgggcg gcgatgagcg cagggccggc
      121 gcagcagctg cgggcgcacg gaggcccgcg ctgctagtca ctcctcccgg cctcggcgcg
      181 cttgtcccgg gcagcggccc gggcccgctg cagccgccgc cggcgccgaa cttgggctcg
      241 ggaagccggc ggaccgcgtc ctgcgccgga gcaggggcat ggtctagtgg cccagtcagg
      301 acgcggaaac actccctgga ggttctgacc cactccctct cagcctccgc ctggtctctg
      361 gtgtagtcgc cgccgccagc cgccatgggc aaacagaaca gcaagctgcg gcccgaggtg
      421 ctgcaggacc tgcgggagaa cacggagttc accgaccacg agctgcagga gtggtacaag
      481 ggcttcctca aggactgccc caccggccac ctgaccgtgg acgagttcaa gaagatctac
      541 gccaacttct tcccctacgg cgacgcttcc aagttcgccg agcacgtctt ccgcaccttc
      601 gacaccaacg gcgacggcac catcgacttc cgggagttca tcattgcgct gagcgtgacc
      661 tcgcggggca agctggagca gaagctcaag tgggccttca gcatgtacga cctggacggc
      721 aacggctaca tcagccgcag cgagatgctg gagatcgtgc aggccatcta caagatggtg
      781 tcgtctgtga tgaagatgcc ggaggatgag tccaccccgg agaagcgcac agacaagatc
      841 ttcaggcaga tggacaccaa caatgacggc aaactgtcct tggaagaatt catcagaggt
      901 gccaagagcg acccctccat cgtccgcctg ctgcagtgcg accccagcag tgccagtcag
      961 ttctgagcga gcggcccctg gacagttgca gagaaacaca ggcttgtcgt gccgtttaag
     1021 ctttgcttgc aagagtggat gccccgcaat cgttcctgct ctcccgggcc ccgggcctgg
     1081 ggcatgcgtt gcacctgccc agcccggtgg ctgcgcctcc ctcctccacc tgaccaacgc
     1141 gacattcctc ccctcacgcc tggcccggtc ccttccaggg caactcccag ggatgtggtg
     1201 acatgcaggg ttcaagtgtt cttggttcca ggcacctccc ggctcacggg gagctcagag
     1261 gtccatgccg aggagaccag gcaggacctc ccgaggctgc gccccggccg gcccatgcgt
     1321 tttgtgatcc caagtgactc tgtgggaagg gtggggacga ggcgtcggga gggtatacag
     1381 ggagcccctc ccgtgcatgg ctgccccccc gttcattttc tccaccacag ccgcttgcac
     1441 gtatagatac tgtggtcccc tttcttttaa tatataaatt atgtatggtg aagtggagtg
     1501 tattgtgtag gtcccgtatt taatgcctct gactgccttt gaagcgcagc cctctgtggc
     1561 ccgcagcccc ctgagcctgg ctgttgtgtg gtatttatgc tctctttgtc tgcctgtttc
     1621 taaggaaatg catgtgtgcc ctgagccgtg atgatcctcc catccgtgtt gtgagcacag
     1681 gcatttgtgt ctggtctgtc ctccctgttg attggtctgg catttccggt attaaaatga
     1741 taaaataaa
//
