LOCUS       NM_012198               3651 bp    mRNA    linear   PRI 04-APR-2024
DEFINITION  Homo sapiens grancalcin (GCA), transcript variant 4, mRNA.
ACCESSION   NM_012198
VERSION     NM_012198.5
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 3651)
  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   2  (bases 1 to 3651)
  AUTHORS   Luck,K., Kim,D.K., Lambourne,L., Spirohn,K., Begg,B.E., Bian,W.,
            Brignall,R., Cafarelli,T., Campos-Laborie,F.J., Charloteaux,B.,
            Choi,D., Cote,A.G., Daley,M., Deimling,S., Desbuleux,A., Dricot,A.,
            Gebbia,M., Hardy,M.F., Kishore,N., Knapp,J.J., Kovacs,I.A.,
            Lemmens,I., Mee,M.W., Mellor,J.C., Pollis,C., Pons,C.,
            Richardson,A.D., Schlabach,S., Teeking,B., Yadav,A., Babor,M.,
            Balcha,D., Basha,O., Bowman-Colin,C., Chin,S.F., Choi,S.G.,
            Colabella,C., Coppin,G., D'Amata,C., De Ridder,D., De Rouck,S.,
            Duran-Frigola,M., Ennajdaoui,H., Goebels,F., Goehring,L., Gopal,A.,
            Haddad,G., Hatchi,E., Helmy,M., Jacob,Y., Kassa,Y., Landini,S.,
            Li,R., van Lieshout,N., MacWilliams,A., Markey,D., Paulson,J.N.,
            Rangarajan,S., Rasla,J., Rayhan,A., Rolland,T., San-Miguel,A.,
            Shen,Y., Sheykhkarimli,D., Sheynkman,G.M., Simonovsky,E., Tasan,M.,
            Tejeda,A., Tropepe,V., Twizere,J.C., Wang,Y., Weatheritt,R.J.,
            Weile,J., Xia,Y., Yang,X., Yeger-Lotem,E., Zhong,Q., Aloy,P.,
            Bader,G.D., De Las Rivas,J., Gaudet,S., Hao,T., Rak,J.,
            Tavernier,J., Hill,D.E., Vidal,M., Roth,F.P. and Calderwood,M.A.
  TITLE     A reference map of the human binary protein interactome
  JOURNAL   Nature 580 (7803), 402-408 (2020)
   PUBMED   32296183
REFERENCE   3  (bases 1 to 3651)
  AUTHORS   Han,S.H., Korm,S., Han,Y.G., Choi,S.Y., Kim,S.H., Chung,H.J.,
            Park,K., Kim,J.Y., Myung,K., Lee,J.Y., Kim,H. and Kim,D.W.
  TITLE     GCA links TRAF6-ULK1-dependent autophagy activation in resistant
            chronic myeloid leukemia
  JOURNAL   Autophagy 15 (12), 2076-2090 (2019)
   PUBMED   30929559
  REMARK    GeneRIF: GCA activates TRAF6 ubiquitin ligase activity to induce
            Lys63 ubiquitination of ULK1, a crucial regulator of autophagy,
            resulting in its stabilization and activation. It was also
            highlighted the role of GCA-TRAF6-ULK1 autophagy regulatory axis in
            imatinib resistance.
REFERENCE   4  (bases 1 to 3651)
  AUTHORS   Fragoza,R., Das,J., Wierbowski,S.D., Liang,J., Tran,T.N., Liang,S.,
            Beltran,J.F., Rivera-Erick,C.A., Ye,K., Wang,T.Y., Yao,L., Mort,M.,
            Stenson,P.D., Cooper,D.N., Wei,X., Keinan,A., Schimenti,J.C.,
            Clark,A.G. and Yu,H.
  TITLE     Extensive disruption of protein interactions by genetic variants
            across the allele frequency spectrum in human populations
  JOURNAL   Nat Commun 10 (1), 4141 (2019)
   PUBMED   31515488
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 3651)
  AUTHORS   Chen,S., Fragoza,R., Klei,L., Liu,Y., Wang,J., Roeder,K., Devlin,B.
            and Yu,H.
  TITLE     An interactome perturbation framework prioritizes damaging missense
            mutations for developmental disorders
  JOURNAL   Nat Genet 50 (7), 1032-1040 (2018)
   PUBMED   29892012
REFERENCE   6  (bases 1 to 3651)
  AUTHORS   Lollike,K., Johnsen,A.H., Durussel,I., Borregaard,N. and Cox,J.A.
  TITLE     Biochemical characterization of the penta-EF-hand protein
            grancalcin and identification of L-plastin as a binding partner
  JOURNAL   J Biol Chem 276 (21), 17762-17769 (2001)
   PUBMED   11279160
REFERENCE   7  (bases 1 to 3651)
  AUTHORS   Jia,J., Han,Q., Borregaard,N., Lollike,K. and Cygler,M.
  TITLE     Crystal structure of human grancalcin, a member of the
            penta-EF-hand protein family
  JOURNAL   J Mol Biol 300 (5), 1271-1281 (2000)
   PUBMED   10903868
REFERENCE   8  (bases 1 to 3651)
  AUTHORS   Maki,M., Narayana,S.V. and Hitomi,K.
  TITLE     A growing family of the Ca2+-binding proteins with five EF-hand
            motifs
  JOURNAL   Biochem J 328 (Pt 2) (Pt 2), 718-720 (1997)
   PUBMED   9441591
REFERENCE   9  (bases 1 to 3651)
  AUTHORS   Teahan,C.G., Totty,N.F. and Segal,A.W.
  TITLE     Isolation and characterization of grancalcin, a novel 28 kDa
            EF-hand calcium-binding protein from human neutrophils
  JOURNAL   Biochem J 286 (Pt 2) (Pt 2), 549-554 (1992)
   PUBMED   1530588
REFERENCE   10 (bases 1 to 3651)
  AUTHORS   Boyhan,A., Casimir,C.M., French,J.K., Teahan,C.G. and Segal,A.W.
  TITLE     Molecular cloning and characterization of grancalcin, a novel
            EF-hand calcium-binding protein abundant in neutrophils and
            monocytes
  JOURNAL   J Biol Chem 267 (5), 2928-2933 (1992)
   PUBMED   1737748
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AC010876.2, BC005214.1 and
            M81637.1.
            
            On Nov 23, 2018 this sequence version replaced NM_012198.4.
            
            Summary: This gene encodes a calcium-binding protein that is
            abundant in neutrophils and macrophages. In the absence of divalent
            cation, this protein localizes to the cytosolic fraction; with
            magnesium alone, it partitions with the granule fraction; and in
            the presence of magnesium and calcium, it associates with both the
            granule and membrane fractions. Alternative splicing and use of
            alternative promoters results in multiple transcript variants.
            [provided by RefSeq, Aug 2016].
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data to make the sequence consistent with the
            reference genome assembly. The genomic coordinates used for the
            transcript record were based on transcript alignments.
            
            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 :: SRR1660803.65667.1,
                                           SRR1660805.219044.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000437150.7/ ENSP00000394842.2
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-18                AC010876.2         62506-62523
            19-602              BC005214.1         1-584
            603-1224            M81637.1           605-1226
            1225-1436           M81637.1           1228-1439
            1437-1647           BC005214.1         1419-1629
            1648-3651           AC010876.2         79494-81497
FEATURES             Location/Qualifiers
     source          1..3651
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="2"
                     /map="2q24.2"
     gene            1..3651
                     /gene="GCA"
                     /gene_synonym="GCL"
                     /note="grancalcin"
                     /db_xref="GeneID:25801"
                     /db_xref="HGNC:HGNC:15990"
                     /db_xref="MIM:607030"
     exon            1..144
                     /gene="GCA"
                     /gene_synonym="GCL"
                     /inference="alignment:Splign:2.1.0"
     CDS             118..771
                     /gene="GCA"
                     /gene_synonym="GCL"
                     /note="isoform b is encoded by transcript variant 4;
                     grancalcin, EF-hand calcium-binding protein; grancalcin,
                     penta-EF-hand protein"
                     /codon_start=1
                     /product="grancalcin isoform b"
                     /protein_id="NP_036330.1"
                     /db_xref="CCDS:CCDS2218.1"
                     /db_xref="GeneID:25801"
                     /db_xref="HGNC:HGNC:15990"
                     /db_xref="MIM:607030"
                     /translation="MAYPGYGGGFGNFSIQVPGMQMGQPVPETGPAILLDGYSGPAYS
                     DTYSSAGDSVYTYFSAVAGQDGEVDAEELQRCLTQSGINGTYSPFSLETCRIMIAMLD
                     RDHTGKMGFNAFKELWAALNAWKENFMTVDQDGSGTVEHHELRQAIGLMGYRLSPQTL
                     TTIVKRYSKNGRIFFDDYVACCVKLRALTDFFRKRDHLQQGSANFIYDDFLQGTMAI"
     exon            145..309
                     /gene="GCA"
                     /gene_synonym="GCL"
                     /inference="alignment:Splign:2.1.0"
     exon            310..379
                     /gene="GCA"
                     /gene_synonym="GCL"
                     /inference="alignment:Splign:2.1.0"
     exon            380..423
                     /gene="GCA"
                     /gene_synonym="GCL"
                     /inference="alignment:Splign:2.1.0"
     exon            424..571
                     /gene="GCA"
                     /gene_synonym="GCL"
                     /inference="alignment:Splign:2.1.0"
     exon            572..685
                     /gene="GCA"
                     /gene_synonym="GCL"
                     /inference="alignment:Splign:2.1.0"
     exon            686..744
                     /gene="GCA"
                     /gene_synonym="GCL"
                     /inference="alignment:Splign:2.1.0"
     exon            745..3651
                     /gene="GCA"
                     /gene_synonym="GCL"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1629..1634
                     /regulatory_class="polyA_signal_sequence"
                     /gene="GCA"
                     /gene_synonym="GCL"
                     /note="hexamer: AACAAG"
     polyA_site      1650
                     /gene="GCA"
                     /gene_synonym="GCL"
                     /note="major polyA site"
     regulatory      3630..3635
                     /regulatory_class="polyA_signal_sequence"
                     /gene="GCA"
                     /gene_synonym="GCL"
                     /note="hexamer: AATAAA"
     polyA_site      3651
                     /gene="GCA"
                     /gene_synonym="GCL"
ORIGIN      
        1 agtgcgcctt tcagcctcac ctgcagctgc gcctccttgc acctgcgcct gtgctttttc
       61 tcccagcact gcggacgcga ctcgagggtg acgctcgctc cgctcgtccc gctcgtcatg
      121 gcctacccgg gatacggagg agggtttgga aattttagca ttcaggtgcc aggaatgcag
      181 atgggacagc cagtgccaga aacaggccca gctatactcc tcgatggata ctctgggcca
      241 gcatattcag acacttattc ctcagctggt gactccgtgt atacttactt cagtgctgtt
      301 gctggacagg atggtgaagt ggatgctgaa gaacttcaga gatgtttgac acagtctgga
      361 attaatggaa cttactctcc cttcagtttg gaaacctgca gaattatgat tgccatgttg
      421 gatagagatc acacaggaaa aatgggattt aatgcattca aagagctatg ggcagctctt
      481 aatgcctgga aggaaaactt catgactgtt gatcaagatg gaagtggcac agtagaacat
      541 catgagttgc gtcaagccat tggtcttatg ggttataggt tgagtcctca aacattaact
      601 actattgtta aacgttatag caagaatggc agaattttct ttgatgatta tgttgcttgc
      661 tgtgtgaagc ttcgagcatt gacagatttc tttaggaaaa gagaccactt gcaacaaggg
      721 tctgcgaatt tcatatatga cgattttttg cagggcacta tggcaatttg aatgcttaga
      781 attttaaacc tgaagagaca ctgtgaattc ttttgtttgg aagaagtgaa ctggactact
      841 ttaaaacttt taagggtttt ctatgttctt cctacctgtt aaacctcttc cctttctgtg
      901 tgtttttatt ttagcagata gttcaaagca ataaaagatt tcttttttaa tttgaggtat
      961 tactgctttt ggaaaagtta ttttataaat atgtgcatat tgtcataaaa tattgtatga
     1021 ttaattgatt taaataatgc ttagccttaa ttttagataa tgtaaattta gaggaatgta
     1081 ctttacaaga tagattgtat aagaagccaa ataatgaaag cctagaaaaa actaatttat
     1141 acttatctga aggttacaaa ttagactttt aaattttctt tgtagttggt ggtgtttgag
     1201 ggttggctag aaatgaaagc ctggattttg tgccatgttt gtaatatagt ttgttccttg
     1261 atcaaataat cagagaaaag aaacttaaag atctttgtct gtgaagaaga aaattatctc
     1321 cctagttcaa tctgtagtga aataagacta cagaaggcat tgttttttcc ttttttattt
     1381 tttgtattat atatttttct taaatatgtt ttattgtctt ctctaagcaa aaagttctta
     1441 ataaacatag tatttctctc tgcgtcctat ttcattagtg aagacatagt tcacctaaaa
     1501 tggcatcctg ctctgaatct agacttttta gaaatggcat atgtttttga tgatatgtca
     1561 acattcaaaa ttgtcctaat taaattgttg tttaaatgta atgtcaactc tttataaact
     1621 taaaaataaa caagtaatta accactctaa ttgttcagaa attttacatt tgacttattt
     1681 gacaacatta acattagtgg tggctttgcc attaaaaacc cagtaagtat tttgagtgca
     1741 tctatgtgat gtggtgtttt gagcatagta ggcaccacag caacttttct gcgtggtact
     1801 aaaactgccg aaaatgcgac gtagaatcac cagatcttta gtgtttaata tccctggtat
     1861 aagatgttat aattaatgta atttctttct tggcaaacac ctcatgtctg tcttagtgaa
     1921 gatttaataa accacttatt tttcttatgc tttaaatgtg tattttctaa cctaacagtg
     1981 agtgacataa ttttatgact gctgaccaaa ttaatttata gattttataa aatcccatgt
     2041 ttcttaatgg atggaggata gatggcaata tcttgaacaa aatcttttat aaacttacag
     2101 aattttaaat cagccttcac ttaaaaaaat cctggaaagg aagtaacgca tagtcacttg
     2161 acactgataa ttttatataa tttgctgtca aattcacttg gtcagtttta taaaaatgtg
     2221 tgaataggta atacacataa ttttgttctc tggctttttt atgaacatat atttgataat
     2281 gtgagaggac attaactgag ctgggaaatt aaagaaacag aattctaatt agaagtgttg
     2341 taggaaaaag caaatgtgaa aacactaagt gtcgttcaca tcgaatggtg ataatgtcgc
     2401 tcagcaacct gtaatcttaa catccaggtt atacagatgg tcgttactga actattctgc
     2461 ggtcgattat gattatctct cttacttgga ggctcacagt tgaggtaaaa cttttaaaat
     2521 gacaaatggt attattcatg taagcttctg ccaggtgaca ctctatatta gaactcttta
     2581 acacaatttt catttaaaaa tgttcttatg acttttggtc atagaaggtc tatgaaggag
     2641 cttccatggc caaacatatt tagaaactct cactttctaa agcttgacaa ggtatattag
     2701 catctgaaac cccaaggtta ataaaatcag tcatgtttaa ttttatttga cccagttttt
     2761 tccaaacttt ttgaccacag aacccctttc tctagcaaaa cctaacattc tatgccgatc
     2821 caacttaatt gccaggcaac tcttctgcac tttacattaa acagacaaac ttatgttaac
     2881 aaaaacatta ggcctagaga atattttacc agaattttta tactgaaata cagttcactt
     2941 tttcgatgct ttaaaaataa ctgatatttt tatgatgaac atgactgtaa tatgaatata
     3001 gtatagtagt ttgcactggt taacttacac cccagttctt ttacgatgat gtaaattatt
     3061 gaataatgta cactcttaat gtataagtgc ttttatttat acagtaaaca tgtttccatg
     3121 tcattttgag aattttttta ataaacattc aaatagcttg ctgtaaagtt ttgtatcata
     3181 caaaatctgt tacatatata tatattatga gatgcttcag ttcaaataac agtgcagtaa
     3241 ttcacctata tctaaaagac tgccaaatta ttaaatgtca ggtattgcac ttctattctg
     3301 agtggcagtt tacacatttt aaattacatc aagggtaaat caatagtatg gaaatcttaa
     3361 tttggtccac tttaaatgta atttcaagga tttctcattt gacctattta cacatgcatc
     3421 cagaaaaaag taacaaaaaa tgtagtcaag ttatgtttat ttccaaaaaa ggcatttacc
     3481 ctagaagaaa gtagaatctg ttaatacagt ttaaagtctg tggagttaaa aaaaataaca
     3541 aaaaatcaat ttgtgattat ttctttaagt aaaatataag acattaagtt tgcctgtaat
     3601 cttatggcat tactaaactg gacaaacaaa ataaatactc tttgtcggaa a
//
