LOCUS       NM_001330724            4935 bp    mRNA    linear   PRI 19-SEP-2024
DEFINITION  Homo sapiens cyclin dependent kinase like 2 (CDKL2), transcript
            variant 2, mRNA.
ACCESSION   NM_001330724 XM_005263335
VERSION     NM_001330724.2
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 4935)
  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   2  (bases 1 to 4935)
  AUTHORS   Shao,Q., Wang,F., Xu,Y., Zhang,X., Tang,W., Feng,Y. and Li,Y.
  TITLE     CDKL2 Is Associated with HER2 Status and Overall Survival in
            Gastric Cancer: Comparative Analysis of CDKL2 Protein Expression
            and Gene Copy Number
  JOURNAL   Biomed Res Int 2020, 1712723 (2020)
   PUBMED   33178818
  REMARK    GeneRIF: CDKL2 Is Associated with HER2 Status and Overall Survival
            in Gastric Cancer: Comparative Analysis of CDKL2 Protein Expression
            and Gene Copy Number.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 4935)
  AUTHORS   Ruan,B., Feng,X., Chen,X., Dong,Z., Wang,Q., Xu,K., Tian,J.,
            Liu,J., Chen,Z., Shi,W., Wang,M., Qian,L. and Ding,Q.
  TITLE     Identification of a Set of Genes Improving Survival Prediction in
            Kidney Renal Clear Cell Carcinoma through Integrative Reanalysis of
            Transcriptomic Data
  JOURNAL   Dis Markers 2020, 8824717 (2020)
   PUBMED   33110456
  REMARK    GeneRIF: Identification of a Set of Genes Improving Survival
            Prediction in Kidney Renal Clear Cell Carcinoma through Integrative
            Reanalysis of Transcriptomic Data.
            Publication Status: Online-Only
REFERENCE   4  (bases 1 to 4935)
  AUTHORS   Yi,R., Yang,S., Liao,Y., Hu,Z., Long,H., Zeng,Y., Wang,X., Qiu,C.,
            Xu,A., Lin,J. and Wu,Z.
  TITLE     Decreased CDKL2 expression is correlated with the progression and
            poor prognosis of glioma
  JOURNAL   Pathol Res Pract 216 (5), 152920 (2020)
   PUBMED   32173142
  REMARK    GeneRIF: Decreased CDKL2 expression is correlated with the
            progression and poor prognosis of glioma.
REFERENCE   5  (bases 1 to 4935)
  AUTHORS   Zhao,Y., Yang,J., Liu,Y., Fan,J. and Yang,H.
  TITLE     HSV-2-encoded miRNA-H4 Regulates Cell Cycle Progression and
            Act-D-induced Apoptosis in HeLa Cells by Targeting CDKL2 and CDKN2A
  JOURNAL   Virol Sin 34 (3), 278-286 (2019)
   PUBMED   30953292
  REMARK    GeneRIF: In HeLa cells infected with HSV-2, we detected
            significantly reduced expression of CDKN2A and CDKL2 and
            demonstrated the negative regulation effect of miRNA-H4-5p on these
            two target genes.
REFERENCE   6  (bases 1 to 4935)
  AUTHORS   Hasson,S.A., Kane,L.A., Yamano,K., Huang,C.H., Sliter,D.A.,
            Buehler,E., Wang,C., Heman-Ackah,S.M., Hessa,T., Guha,R.,
            Martin,S.E. and Youle,R.J.
  TITLE     High-content genome-wide RNAi screens identify regulators of parkin
            upstream of mitophagy
  JOURNAL   Nature 504 (7479), 291-295 (2013)
   PUBMED   24270810
REFERENCE   7  (bases 1 to 4935)
  AUTHORS   Marracci,G.H., Marquardt,W.E., Strehlow,A., McKeon,G.P., Gross,J.,
            Buck,D.C., Kozell,L.B. and Bourdette,D.N.
  TITLE     Lipoic acid downmodulates CD4 from human T lymphocytes by
            dissociation of p56(Lck)
  JOURNAL   Biochem Biophys Res Commun 344 (3), 963-971 (2006)
   PUBMED   16631599
  REMARK    GeneRIF: We hypothesized that LA might induce dissociation of
            p56(Lck) from CD4, thus leading to its downmodulation.
REFERENCE   8  (bases 1 to 4935)
  AUTHORS   Tao,J., Van Esch,H., Hagedorn-Greiwe,M., Hoffmann,K., Moser,B.,
            Raynaud,M., Sperner,J., Fryns,J.P., Schwinger,E., Gecz,J.,
            Ropers,H.H. and Kalscheuer,V.M.
  TITLE     Mutations in the X-linked cyclin-dependent kinase-like 5
            (CDKL5/STK9) gene are associated with severe neurodevelopmental
            retardation
  JOURNAL   Am J Hum Genet 75 (6), 1149-1154 (2004)
   PUBMED   15499549
REFERENCE   9  (bases 1 to 4935)
  AUTHORS   Taglienti,C.A., Wysk,M. and Davis,R.J.
  TITLE     Molecular cloning of the epidermal growth factor-stimulated protein
            kinase p56 KKIAMRE
  JOURNAL   Oncogene 13 (12), 2563-2574 (1996)
   PUBMED   9000130
REFERENCE   10 (bases 1 to 4935)
  AUTHORS   Marcilla,A., Rivero-Lezcano,O.M., Agarwal,A. and Robbins,K.C.
  TITLE     Identification of the major tyrosine kinase substrate in signaling
            complexes formed after engagement of Fc gamma receptors
  JOURNAL   J Biol Chem 270 (16), 9115-9120 (1995)
   PUBMED   7721825
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from DC400929.1, U35146.1,
            AK294866.1, AC104828.4, DA309702.1, AC096759.3, AA813092.1 and
            BX095447.1.
            
            On Nov 22, 2018 this sequence version replaced NM_001330724.1.
            
            Summary: This gene product is a member of a large family of
            CDC2-related serine/threonine protein kinases. It accumulates
            primarily in the cytoplasm, with lower levels in the nucleus.
            [provided by RefSeq, Jul 2008].
            
            Transcript Variant: This variant (2) contains two consecutive
            alternate in-frame exons in the 3' coding region, compared to
            variant 1. The encoded isoform (2) is longer, but has the same N-
            and C-termini as isoform 1.
            
            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 :: SRR18074969.1261918.1,
                                           SRR18074967.3796905.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000307465.9/ ENSP00000306340.4
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-141               DC400929.1         13-153
            142-1859            U35146.1           1-1718
            1860-2057           AK294866.1         1855-2052
            2058-2058           AC104828.4         3034-3034           c
            2059-2494           AK294866.1         2054-2489
            2495-3076           DA309702.1         10-591
            3077-4528           AC096759.3         184396-185847       c
            4529-4931           AA813092.1         9-411               c
            4932-4935           BX095447.1         666-669
FEATURES             Location/Qualifiers
     source          1..4935
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="4"
                     /map="4q21.1"
     gene            1..4935
                     /gene="CDKL2"
                     /gene_synonym="KKIAMRE; P56"
                     /note="cyclin dependent kinase like 2"
                     /db_xref="GeneID:8999"
                     /db_xref="HGNC:HGNC:1782"
                     /db_xref="MIM:603442"
     exon            1..487
                     /gene="CDKL2"
                     /gene_synonym="KKIAMRE; P56"
                     /inference="alignment:Splign:2.1.0"
     exon            488..684
                     /gene="CDKL2"
                     /gene_synonym="KKIAMRE; P56"
                     /inference="alignment:Splign:2.1.0"
     CDS             517..2229
                     /gene="CDKL2"
                     /gene_synonym="KKIAMRE; P56"
                     /EC_number="2.7.11.22"
                     /note="isoform 2 is encoded by transcript variant 2; p56
                     KKIAMRE protein kinase; serine/threonine protein kinase
                     KKIAMRE; CDC2-related kinase; protein kinase p56 KKIAMRE;
                     testicular tissue protein Li 35"
                     /codon_start=1
                     /product="cyclin-dependent kinase-like 2 isoform 2"
                     /protein_id="NP_001317653.1"
                     /db_xref="CCDS:CCDS82933.1"
                     /db_xref="GeneID:8999"
                     /db_xref="HGNC:HGNC:1782"
                     /db_xref="MIM:603442"
                     /translation="MEKYENLGLVGEGSYGMVMKCRNKDTGRIVAIKKFLESDDDKMV
                     KKIAMREIKLLKQLRHENLVNLLEVCKKKKRWYLVFEFVDHTILDDLELFPNGLDYQV
                     VQKYLFQIINGIGFCHSHNIIHRDIKPENILVSQSGVVKLCDFGFARTLAAPGEVYTD
                     YVATRWYRAPELLVGDVKYGKAVDVWAIGCLVTEMFMGEPLFPGDSDIDQLYHIMMCL
                     GNLIPRHQELFNKNPVFAGVRLPEIKEREPLERRYPKLSEVVIDLAKKCLHIDPDKRP
                     FCAELLHHDFFQMDGFAERFSQELQLKVQKDARNVSLSKKSQNRKKEKEKDDSLVEER
                     KTLVVQDTNADPKIKDYKLFKIKGSKIDGEKAEKGNRASNASCLHDSRTSHNKIVPST
                     SLKDCSNVSVDHTRNPSVAIPPLTHNLSAVAPSINSGMGTETIPIQGYRVDEKTKKCS
                     IPFVKPNRHSPSGIYNINVTTLVSSEKNLFWASKKRREYSRTDVRLPELNYNHLPELR
                     ALGGIARNSRLTKKESKILSESRIPSLAAIDLHTPSITLHQVSGPPLSDDSGADLPQM
                     EHQH"
     exon            685..879
                     /gene="CDKL2"
                     /gene_synonym="KKIAMRE; P56"
                     /inference="alignment:Splign:2.1.0"
     exon            880..1058
                     /gene="CDKL2"
                     /gene_synonym="KKIAMRE; P56"
                     /inference="alignment:Splign:2.1.0"
     exon            1059..1171
                     /gene="CDKL2"
                     /gene_synonym="KKIAMRE; P56"
                     /inference="alignment:Splign:2.1.0"
     exon            1172..1311
                     /gene="CDKL2"
                     /gene_synonym="KKIAMRE; P56"
                     /inference="alignment:Splign:2.1.0"
     exon            1312..1400
                     /gene="CDKL2"
                     /gene_synonym="KKIAMRE; P56"
                     /inference="alignment:Splign:2.1.0"
     exon            1401..1536
                     /gene="CDKL2"
                     /gene_synonym="KKIAMRE; P56"
                     /inference="alignment:Splign:2.1.0"
     exon            1537..1838
                     /gene="CDKL2"
                     /gene_synonym="KKIAMRE; P56"
                     /inference="alignment:Splign:2.1.0"
     exon            1839..1932
                     /gene="CDKL2"
                     /gene_synonym="KKIAMRE; P56"
                     /inference="alignment:Splign:2.1.0"
     exon            1933..2056
                     /gene="CDKL2"
                     /gene_synonym="KKIAMRE; P56"
                     /inference="alignment:Splign:2.1.0"
     exon            2057..2163
                     /gene="CDKL2"
                     /gene_synonym="KKIAMRE; P56"
                     /inference="alignment:Splign:2.1.0"
     exon            2164..2252
                     /gene="CDKL2"
                     /gene_synonym="KKIAMRE; P56"
                     /inference="alignment:Splign:2.1.0"
     exon            2253..4935
                     /gene="CDKL2"
                     /gene_synonym="KKIAMRE; P56"
                     /inference="alignment:Splign:2.1.0"
     regulatory      4916..4921
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CDKL2"
                     /gene_synonym="KKIAMRE; P56"
                     /note="hexamer: AATAAA"
     polyA_site      4935
                     /gene="CDKL2"
                     /gene_synonym="KKIAMRE; P56"
                     /note="major polyA site"
ORIGIN      
        1 cccttgcagc tccgcggcca acgccttcgc ccaggggtag ttggagcggt gcaggttccc
       61 aggctccagg tactgggcgc cttacgagct gggaggtggt gcctctcacc cagctaattg
      121 ctctctagcc cttggccttc acaggtgttg gtgcctgccg tgaacgcatt ctgacctggg
      181 ccgtatctgt ctcccaagac tttgtgccta tggttgggga cagagtgagg tcgttgcctt
      241 gacgacgaca gcatgcggcc cgtggtcctc ctaagtgtga gcttgcggcg gaccgaggcc
      301 cacctgcctc cctgcctgct tcgccctgga ctcgtgactg cgtccgcaga agaaatcaca
      361 acagcgctgg aattgctagt ttgctaggca gcatcttttg gacctgcgaa ccatatgcat
      421 ttcacctcaa atttgtttcc aagttgaaaa cctttgggtc tttctatgcg aacggattga
      481 agaaacgcaa aaagtttcta cggactttaa attaaaatgg aaaaatatga aaacctgggt
      541 ttggttggag aagggagtta tggaatggtg atgaagtgta ggaataaaga tactggaaga
      601 attgtggcca taaagaagtt cttagaaagt gacgatgaca aaatggttaa aaagattgca
      661 atgcgagaaa tcaagttact aaagcaactt aggcatgaaa acttggtgaa tctcttggaa
      721 gtgtgtaaga aaaaaaaacg atggtaccta gtctttgaat ttgttgacca cacaattctt
      781 gatgacttgg agctctttcc aaatggacta gactaccaag tagttcaaaa gtatttgttt
      841 cagattatta atggaattgg attttgtcac agtcacaata tcatacacag agatataaag
      901 ccagagaata tattagtctc ccagtctggc gttgtcaagc tatgcgattt tggatttgcg
      961 cgaacattgg cagctcctgg ggaggtttat actgattatg tggcaacccg atggtacaga
     1021 gctccagaac tattggttgg tgatgtcaag tatggcaagg ctgttgatgt gtgggccatt
     1081 ggttgtctgg taactgaaat gttcatgggg gaacccctat ttcctggaga ttctgatatt
     1141 gatcagctat atcatattat gatgtgttta ggtaatctaa ttccaaggca tcaggagctt
     1201 tttaataaaa atcctgtgtt tgctggagta aggttgcctg aaatcaagga aagagaacct
     1261 cttgaaagac gctatcctaa gctctctgaa gtggtgatag atttagcaaa gaaatgctta
     1321 catattgacc ccgacaaaag acccttctgt gctgagctcc tacaccatga tttctttcaa
     1381 atggatggat ttgctgagag gttttcccaa gaactacagt taaaagtaca gaaagatgcc
     1441 agaaatgttt ctttatctaa aaaatcccaa aacagaaaga aggaaaaaga aaaagatgat
     1501 tccttagttg aagaaagaaa aacacttgtg gtacaggata ccaatgctga tcccaaaatt
     1561 aaggattata aactatttaa aataaaaggc tcaaaaattg atggagaaaa agctgaaaaa
     1621 ggcaatagag cttcaaatgc cagctgtctc catgacagta ggacaagcca caacaaaata
     1681 gtgccttcaa caagcctcaa agactgcagc aatgtcagcg tggaccacac aaggaatcca
     1741 agcgtggcaa ttcccccact tacacacaat ctttctgcag ttgctcccag cattaattct
     1801 ggaatgggga ctgagactat accaattcag ggttacagag tggatgagaa aactaagaag
     1861 tgttctattc catttgttaa accgaacaga cattccccat caggcattta taacattaat
     1921 gtgaccacat tagtctctag tgaaaaaaac ctcttttggg caagtaagaa aagaagagaa
     1981 tactccagga cagatgtccg tttgcctgaa ctaaactata atcatctccc tgaactaaga
     2041 gcactgggag gcatagctcg aaattccagg ctaacaaaga aagagagcaa aattctttca
     2101 gaatctcgaa ttccttctct ggctgctatt gacctgcaca cccccagtat tacattacat
     2161 caggtatcag gacctcccct gtcagatgat tcaggggctg atttgcctca aatggaacac
     2221 cagcactgag aaccattttg gttctgaact ggatgatgct cttgcacttg agatgacatc
     2281 ttcttgcagc aagagtgctg atatcccaag aggagagatt catggttttg atcatttcct
     2341 tctgaactgc ctgcattttc tgaggaaggc cttctagaag aaggaaagac aaagacttcc
     2401 aaatgtttca aaggaagatt gaacaaatgg ccctccccaa ctgttatccc attacctttc
     2461 acgtccaccg atgctatttc aagacatatc cagtggaata acagtgatat ggttcttgtt
     2521 acatgaatgt gtatttactg ttaggagatt gtatatttta agttaccatg attaaaagtg
     2581 tgtaaaaaag ggggacagag agaaatacta taaaaggcca tgttactcat gcattgaact
     2641 ttgtgtgttt tctgtataaa tgtgtacatt tatttaggag tgggtttctt gggggtaggt
     2701 gataaaaatt aggatcagtt gaagaaaatt gaagaaacta ggatcagtaa gagaaactgt
     2761 ttgctttacc tgaatttaac tatgaaaaca cacttaacaa tcttacacgt ttctagatat
     2821 taagtgaata tgtaactcct gtccatgggt agatgtgtat ctttgacttc tgtaattatt
     2881 tttgatattc tatcagtgta ttatgagact ctggcctccc tgcagatctt ctaagaacca
     2941 cactaatgca agcgtgacag agaaacctct ttcgaatgac ttactacaac tctggcattg
     3001 gttagttcca tgtattgtaa gattctggtg ctaatgctcc atacagaatt gatcaggact
     3061 gattactctt ctgtggacca attgctattg aactacccag ctgaagaggg tttggggaga
     3121 gaacgttcat tattatggac tccacttttg tcccctggta gtttaagggt gatactagaa
     3181 tccagagaag ttcctgtctc cttgtggcct caaacactca ggccgtctca aaagcttttc
     3241 accaaggtgc aaaatcattt acctgcattc cacacatctt ttccaatgca tggatccaaa
     3301 actttttagg tgggaggaat aaactaagtt ggctacaggt tcttgatttc tgggtttcta
     3361 cacatgctct gcatttatca ttttagagaa tggttgttta gggaaccaga atttgtgagt
     3421 tttttttttt tttttgcctt aactaattaa tagtgtgttg ctttttttcc aaagccattg
     3481 actagaactt agctgaagaa tttaactaga acttttcttt attactctga ggagcttaat
     3541 actgaaattc tgaccttgga tatttaagcc tcaaaagagt aggacattca agaggaggca
     3601 aataaggggt ttcaatgtac aagtctatag gtggtggtta aattaaaatt ggtcttgatt
     3661 taaaagctct acttttaatc tgtgaccagc tgtttgacaa cattagtatg gataacatgc
     3721 tgaaaaaact agggtatcag cattaatagg ctgcatatta aaaagttact actttatttt
     3781 tactttgaaa aacactgcca atagattctg cagcatggca aacaggtaat acttaaagcc
     3841 aaatggcgct tcggcttatt tcaatactat ttttatgtaa agatcagtgt gagaatatca
     3901 gctcaatggt tgaggttcta ggatcaattg ccttgcagtt tttatactag cttttgatat
     3961 cttttgccta ttaaaacact ttgtgaactt tagaattaag gaactaaaaa atatttacca
     4021 taagtccaag ttatgacttg aggatcatat ctgattagaa ctgtggcaga actactagaa
     4081 aaagattctg caaattggtt tcagtgattc ttgttgatgt aatcaacaag attacataat
     4141 caacaataat agatattgaa ccaaaatgat ccttttttta agtttaaggt tatttagttt
     4201 ctcttgcaag gatatgattt agtcacacac taatagggaa tatgtgtatg tactggtggg
     4261 gagcagtggg cttgctgcat gtatgtatgt tttaaaatta ataaatatta tcttactggg
     4321 ctccatagat ggtttaaatt tagatttatt taattaagag gctataaata atatatacac
     4381 tactgtatgg tatttaacaa ataagtttta aatctgttaa ttcttctgga aaactttgga
     4441 tgtagggatg gcaagctaat tttcttgtat agctggtgat ataagcagca tggtcataaa
     4501 ataacatttc ttataaagac taactggtaa tagttgtgac agaacctggt tttcctgact
     4561 gagaatccct tgcttgctta gaatatctga cttcccattg aaatggaaca tagaaaatgt
     4621 gttttcttat gtgactctca ttattggttc ctttatctta gttgtgctac aatataaggc
     4681 tggacctgta atacactatg tatcagacta gactgaaaaa tgtgatcgat ttgttttcta
     4741 agtcctcctc tatataactg aaccatggtc aggggattag agaagcaaca gagcactgct
     4801 cctaaggctt taggctagtc ttagtgaatt ggactgaatg gatttttctc tgttgttttt
     4861 tgcattaagt gtttttgcac tagaagaggg tgcttaacac tcctctatct atatgaataa
     4921 aaaattatgt tctca
//
