LOCUS       NM_016440               1923 bp    mRNA    linear   PRI 20-FEB-2025
DEFINITION  Homo sapiens VRK serine/threonine kinase 3 (VRK3), transcript
            variant 1, mRNA.
ACCESSION   NM_016440
VERSION     NM_016440.4
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 1923)
  AUTHORS   Yang,S., McAdow,J., Du,Y., Trigg,J., Taghert,P.H. and Johnson,A.N.
  TITLE     Spatiotemporal expression of regulatory kinases directs the
            transition from mitosis to cellular morphogenesis in Drosophila
  JOURNAL   Nat Commun 13 (1), 772 (2022)
   PUBMED   35140224
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 1923)
  AUTHORS   Qin,Y., Huttlin,E.L., Winsnes,C.F., Gosztyla,M.L., Wacheul,L.,
            Kelly,M.R., Blue,S.M., Zheng,F., Chen,M., Schaffer,L.V., Licon,K.,
            Backstrom,A., Vaites,L.P., Lee,J.J., Ouyang,W., Liu,S.N., Zhang,T.,
            Silva,E., Park,J., Pitea,A., Kreisberg,J.F., Gygi,S.P., Ma,J.,
            Harper,J.W., Yeo,G.W., Lafontaine,D.L.J., Lundberg,E. and Ideker,T.
  TITLE     A multi-scale map of cell structure fusing protein images and
            interactions
  JOURNAL   Nature 600 (7889), 536-542 (2021)
   PUBMED   34819669
REFERENCE   3  (bases 1 to 1923)
  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   4  (bases 1 to 1923)
  AUTHORS   Han,S.H. and Kim,K.T.
  TITLE     RNF144a induces ERK-dependent cell death under oxidative stress via
            downregulation of vaccinia-related kinase 3
  JOURNAL   J Cell Sci 133 (21) (2020)
   PUBMED   33067254
  REMARK    GeneRIF: RNF144a induces ERK-dependent cell death under oxidative
            stress via downregulation of vaccinia-related kinase 3.
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 1923)
  AUTHORS   Silva-Evangelista,C., Barret,E., Menez,V., Merlevede,J.,
            Kergrohen,T., Saccasyn,A., Oberlin,E., Puget,S., Beccaria,K.,
            Grill,J., Castel,D. and Debily,M.A.
  TITLE     A kinome-wide shRNA screen uncovers vaccinia-related kinase 3
            (VRK3) as an essential gene for diffuse intrinsic pontine glioma
            survival
  JOURNAL   Oncogene 38 (38), 6479-6490 (2019)
   PUBMED   31324890
  REMARK    GeneRIF: VRK3 is an interesting and promising target in Diffuse
            intrinsic pontine glioma.
REFERENCE   6  (bases 1 to 1923)
  AUTHORS   Quiel,A., Jurgen,B., Greinacher,A., Lassen,S., Worl,R., Witt,S. and
            Schweder,T.
  TITLE     Sensitive detection of idiotypic platelet-reactive alloantibodies
            by an electrical protein chip
  JOURNAL   Biosens Bioelectron 36 (1), 207-211 (2012)
   PUBMED   22572157
REFERENCE   7  (bases 1 to 1923)
  AUTHORS   de Mateo,S., Castillo,J., Estanyol,J.M., Ballesca,J.L. and Oliva,R.
  TITLE     Proteomic characterization of the human sperm nucleus
  JOURNAL   Proteomics 11 (13), 2714-2726 (2011)
   PUBMED   21630459
REFERENCE   8  (bases 1 to 1923)
  AUTHORS   Scheeff,E.D., Eswaran,J., Bunkoczi,G., Knapp,S. and Manning,G.
  TITLE     Structure of the pseudokinase VRK3 reveals a degraded catalytic
            site, a highly conserved kinase fold, and a putative regulatory
            binding site
  JOURNAL   Structure 17 (1), 128-138 (2009)
   PUBMED   19141289
REFERENCE   9  (bases 1 to 1923)
  AUTHORS   Sanz-Garcia,M., Lopez-Sanchez,I. and Lazo,P.A.
  TITLE     Proteomics identification of nuclear Ran GTPase as an inhibitor of
            human VRK1 and VRK2 (vaccinia-related kinase) activities
  JOURNAL   Mol Cell Proteomics 7 (11), 2199-2214 (2008)
   PUBMED   18617507
REFERENCE   10 (bases 1 to 1923)
  AUTHORS   Nichols,R.J. and Traktman,P.
  TITLE     Characterization of three paralogous members of the Mammalian
            vaccinia related kinase family
  JOURNAL   J Biol Chem 279 (9), 7934-7946 (2004)
   PUBMED   14645249
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AF514788.1, AC011452.6 and
            AV706241.1.
            
            On Nov 23, 2018 this sequence version replaced NM_016440.3.
            
            Summary: This gene encodes a member of the vaccinia-related kinase
            (VRK) family of serine/threonine protein kinases. In both human and
            mouse, this gene has substitutions at several residues within the
            ATP binding motifs that in other kinases have been shown to be
            required for catalysis. In vitro assays indicate the protein lacks
            phosphorylation activity. The protein, however, likely retains its
            substrate binding capability. This gene is widely expressed in
            human tissues and its protein localizes to the nucleus. Alternative
            splicing results in multiple transcripts encoding different
            isoforms. [provided by RefSeq, Jul 2008].
            
            Transcript Variant: This variant (1) represents the longest
            transcript and encodes the longest isoform (1).
            
            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 :: AF514788.1, AB031052.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000316763.8/ ENSP00000324636.2
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-650               AF514788.1         9-658
            651-717             AC011452.6         114073-114139       c
            718-782             AC011452.6         107294-107358       c
            783-849             AC011452.6         104008-104074       c
            850-934             AC011452.6         101695-101779       c
            935-1040            AC011452.6         101318-101423       c
            1041-1133           AC011452.6         99364-99456         c
            1134-1266           AC011452.6         96143-96275         c
            1267-1387           AC011452.6         94876-94996         c
            1388-1446           AC011452.6         87459-87517         c
            1447-1606           AC011452.6         85587-85746         c
            1607-1897           AC011452.6         82998-83288         c
            1898-1923           AV706241.1         331-356
FEATURES             Location/Qualifiers
     source          1..1923
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="19"
                     /map="19q13.33"
     gene            1..1923
                     /gene="VRK3"
                     /note="VRK serine/threonine kinase 3"
                     /db_xref="GeneID:51231"
                     /db_xref="HGNC:HGNC:18996"
                     /db_xref="MIM:619771"
     exon            1..106
                     /gene="VRK3"
                     /inference="alignment:Splign:2.1.0"
     exon            107..169
                     /gene="VRK3"
                     /inference="alignment:Splign:2.1.0"
     exon            170..309
                     /gene="VRK3"
                     /inference="alignment:Splign:2.1.0"
     CDS             171..1595
                     /gene="VRK3"
                     /EC_number="2.7.11.22"
                     /note="isoform 1 is encoded by transcript variant 1;
                     serine/threonine-protein kinase VRK3; inactive
                     serine/threonine-protein kinase VRK3;
                     serine/threonine-protein pseudokinase VRK3; vaccinia
                     related kinase 3"
                     /codon_start=1
                     /product="serine/threonine-protein kinase VRK3 isoform 1"
                     /protein_id="NP_057524.3"
                     /db_xref="CCDS:CCDS12791.1"
                     /db_xref="GeneID:51231"
                     /db_xref="HGNC:HGNC:18996"
                     /db_xref="MIM:619771"
                     /translation="MISFCPDCGKSIQAAFKFCPYCGNSLPVEEHVGSQTFVNPHVSS
                     FQGSKRGLNSSFETSPKKVKWSSTVTSPRLSLFSDGDSSESEDTLSSSERSKGSGSRP
                     PTPKSSPQKTRKSPQVTRGSPQKTSCSPQKTRQSPQTLKRSRVTTSLEALPTGTVLTD
                     KSGRQWKLKSFQTRDNQGILYEAAPTSTLTCDSGPQKQKFSLKLDAKDGRLFNEQNFF
                     QRAAKPLQVNKWKKLYSTPLLAIPTCMGFGVHQDKYRFLVLPSLGRSLQSALDVSPKH
                     VLSERSVLQVACRLLDALEFLHENEYVHGNVTAENIFVDPEDQSQVTLAGYGFAFRYC
                     PSGKHVAYVEGSRSPHEGDLEFISMDLHKGCGPSRRSDLQSLGYCMLKWLYGFLPWTN
                     CLPNTEDIMKQKQKFVDKPGPFVGPCGHWIRPSETLQKYLKVVMALTYEEKPPYAMLR
                     NNLEALLQDLRVSPYDPIGLPMVP"
     exon            310..459
                     /gene="VRK3"
                     /inference="alignment:Splign:2.1.0"
     exon            460..717
                     /gene="VRK3"
                     /inference="alignment:Splign:2.1.0"
     exon            718..782
                     /gene="VRK3"
                     /inference="alignment:Splign:2.1.0"
     exon            783..849
                     /gene="VRK3"
                     /inference="alignment:Splign:2.1.0"
     exon            850..934
                     /gene="VRK3"
                     /inference="alignment:Splign:2.1.0"
     exon            935..1040
                     /gene="VRK3"
                     /inference="alignment:Splign:2.1.0"
     exon            1041..1133
                     /gene="VRK3"
                     /inference="alignment:Splign:2.1.0"
     exon            1134..1266
                     /gene="VRK3"
                     /inference="alignment:Splign:2.1.0"
     exon            1267..1387
                     /gene="VRK3"
                     /inference="alignment:Splign:2.1.0"
     exon            1388..1446
                     /gene="VRK3"
                     /inference="alignment:Splign:2.1.0"
     exon            1447..1606
                     /gene="VRK3"
                     /inference="alignment:Splign:2.1.0"
     exon            1607..1923
                     /gene="VRK3"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1905..1910
                     /regulatory_class="polyA_signal_sequence"
                     /gene="VRK3"
                     /note="hexamer: AATAAA"
     polyA_site      1923
                     /gene="VRK3"
                     /note="major polyA site"
ORIGIN      
        1 ggaagttttc gctgggcaac tgagaaggtg agtccgggta actgcggagg atccgagggt
       61 caggctgcag aagcccagaa tcccacccca gtccccaagt acagaggtcg ctgtcaagat
      121 ggagtttcca acccagtaaa tccaagggcc agaccgtgac ctcataaagc atgatctcct
      181 tctgtccaga ctgtggcaaa agtatccaag cggcattcaa attctgcccc tactgtggaa
      241 attctttgcc tgtagaggag catgtagggt cccagacctt tgtcaatcca catgtgtcat
      301 ccttccaagg ctcaaagaga gggctgaact ccagttttga aacctctcct aagaaagtga
      361 aatggtccag caccgtcacc tctccccgat tatccctctt ctcagatggt gacagttctg
      421 agtctgaaga tactctgagt tcctctgaga gatccaaagg ctccgggagc agacccccaa
      481 cccccaaaag cagccctcag aagaccagga agagccctca ggtgaccagg ggtagccctc
      541 agaagaccag ctgtagccct cagaagacca ggcagagccc tcagacgctg aagcggagcc
      601 gagtgaccac ctcacttgaa gctttgccca cagggacagt gctgacagac aagagtgggc
      661 gacagtggaa gctgaagtcc ttccagacca gggacaacca gggcattctc tatgaagctg
      721 cacccacctc caccctcacc tgtgactcag gaccacagaa gcaaaagttc tcactcaaac
      781 tggatgccaa ggatgggcgc ttgttcaatg agcagaactt cttccagcgg gccgccaagc
      841 ctctgcaagt caacaagtgg aagaagctgt actcgacccc actgctggcc atccctacct
      901 gcatgggttt cggtgttcac caggacaaat acaggttctt ggtgttaccc agcctgggga
      961 ggagccttca gtcggccctg gatgtcagcc caaagcatgt gctgtcagag aggtctgtgc
     1021 tgcaggtggc ctgccggctg ctggatgccc tggagttcct ccatgagaat gagtatgttc
     1081 atggaaatgt gacagctgaa aatatctttg tggatccaga ggaccagagt caggtgactt
     1141 tggcaggcta tggcttcgcc ttccgctatt gcccaagtgg caaacacgtg gcctacgtgg
     1201 aaggcagcag gagccctcac gagggggacc ttgagttcat tagcatggac ctgcacaagg
     1261 gatgcgggcc ctcccgccgc agcgacctcc agagcctggg ctactgcatg ctgaagtggc
     1321 tctacgggtt tctgccatgg acaaattgcc ttcccaacac tgaggacatc atgaagcaaa
     1381 aacagaagtt tgttgataag ccggggccct tcgtgggacc ctgcggtcac tggatcaggc
     1441 cctcagagac cctgcagaag tacctgaagg tggtgatggc cctcacgtat gaggagaagc
     1501 cgccctacgc catgctgagg aacaacctag aagctttgct gcaggatctg cgtgtgtctc
     1561 catatgaccc cattggcctc ccgatggtgc cctaggtgga atccagaact ttccatttgc
     1621 agtgtgcaac agaaaaaaaa aaatgaagta atgtgactca aggcctgctg tttaatcaca
     1681 gataagcttc tagaacaagc cctggaatgt gcattcctgc cactggtttc aggatactca
     1741 tcagtcctga ttagcctccc ggagggcccc agtttccctc ccgtgaatgt gaagttcccc
     1801 atcttggtgg cctgcccttc agccagtgtc ctagcaaagc tggatggggt tgggccggcc
     1861 cacagggggg acccctccta cccttgacac ctctgtgctt tggtaataaa ttgttttacc
     1921 aga
//
