LOCUS       NM_012406               4182 bp    mRNA    linear   PRI 04-APR-2024
DEFINITION  Homo sapiens PR/SET domain 4 (PRDM4), mRNA.
ACCESSION   NM_012406
VERSION     NM_012406.4
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 4182)
  AUTHORS   Benz,C., Ali,M., Krystkowiak,I., Simonetti,L., Sayadi,A.,
            Mihalic,F., Kliche,J., Andersson,E., Jemth,P., Davey,N.E. and
            Ivarsson,Y.
  TITLE     Proteome-scale mapping of binding sites in the unstructured regions
            of the human proteome
  JOURNAL   Mol Syst Biol 18 (1), e10584 (2022)
   PUBMED   35044719
REFERENCE   2  (bases 1 to 4182)
  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 4182)
  AUTHORS   Liu,H., Dai,X., Cao,X., Yan,H., Ji,X., Zhang,H., Shen,S., Si,Y.,
            Zhang,H., Chen,J., Li,L., Zhao,J.C., Yu,J., Feng,X.H. and Zhao,B.
  TITLE     PRDM4 mediates YAP-induced cell invasion by activating
            leukocyte-specific integrin beta2 expression
  JOURNAL   EMBO Rep 19 (6) (2018)
   PUBMED   29669796
  REMARK    GeneRIF: results demonstrate that YAP promotes cell invasion by
            inducing leukocyte-specific integrin expression, and identify PRDM4
            as a novel transcription factor for YAP targets.
REFERENCE   4  (bases 1 to 4182)
  AUTHORS   Rolev,K., O'Donovan,D.G., Georgiou,C., Rajan,M.S. and Chittka,A.
  TITLE     Identification of Prdm genes in human corneal endothelium
  JOURNAL   Exp Eye Res 159, 114-122 (2017)
   PUBMED   28228349
  REMARK    GeneRIF: Both Prdm 4 and Prdm 5 are expressed in human corneal
            endothelium, primary hCECs and in HCECs-12 cells, characterised by
            expression of the Na(+)/K(+)-ATPase.
REFERENCE   5  (bases 1 to 4182)
  AUTHORS   Yin,Y., Morgunova,E., Jolma,A., Kaasinen,E., Sahu,B.,
            Khund-Sayeed,S., Das,P.K., Kivioja,T., Dave,K., Zhong,F.,
            Nitta,K.R., Taipale,M., Popov,A., Ginno,P.A., Domcke,S., Yan,J.,
            Schubeler,D., Vinson,C. and Taipale,J.
  TITLE     Impact of cytosine methylation on DNA binding specificities of
            human transcription factors
  JOURNAL   Science 356 (6337) (2017)
   PUBMED   28473536
REFERENCE   6  (bases 1 to 4182)
  AUTHORS   Vaquerizas,J.M., Kummerfeld,S.K., Teichmann,S.A. and Luscombe,N.M.
  TITLE     A census of human transcription factors: function, expression and
            evolution
  JOURNAL   Nat Rev Genet 10 (4), 252-263 (2009)
   PUBMED   19274049
  REMARK    Review article
REFERENCE   7  (bases 1 to 4182)
  AUTHORS   Girard,A., Sachidanandam,R., Hannon,G.J. and Carmell,M.A.
  TITLE     A germline-specific class of small RNAs binds mammalian Piwi
            proteins
  JOURNAL   Nature 442 (7099), 199-202 (2006)
   PUBMED   16751776
REFERENCE   8  (bases 1 to 4182)
  AUTHORS   Colland,F., Jacq,X., Trouplin,V., Mougin,C., Groizeleau,C.,
            Hamburger,A., Meil,A., Wojcik,J., Legrain,P. and Gauthier,J.M.
  TITLE     Functional proteomics mapping of a human signaling pathway
  JOURNAL   Genome Res 14 (7), 1324-1332 (2004)
   PUBMED   15231748
REFERENCE   9  (bases 1 to 4182)
  AUTHORS   Lopez-Sanchez,N. and Frade,J.M.
  TITLE     Control of the cell cycle by neurotrophins: lessons from the p75
            neurotrophin receptor
  JOURNAL   Histol Histopathol 17 (4), 1227-1237 (2002)
   PUBMED   12371150
  REMARK    Review article
REFERENCE   10 (bases 1 to 4182)
  AUTHORS   Yang,X.H. and Huang,S.
  TITLE     PFM1 (PRDM4), a new member of the PR-domain family, maps to a tumor
            suppressor locus on human chromosome 12q23-q24.1
  JOURNAL   Genomics 61 (3), 319-325 (1999)
   PUBMED   10552934
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from BU502236.1, AK056378.1 and
            AL133083.1.
            
            On Nov 22, 2018 this sequence version replaced NM_012406.3.
            
            Summary: The protein encoded by this gene is a transcription factor
            of the PR-domain protein family. It contains a PR-domain and
            multiple zinc finger motifs. Transcription factors of the PR-domain
            family are known to be involved in cell differentiation and
            tumorigenesis. An elevated expression level of this gene has been
            observed in PC12 cells treated with nerve growth factor, beta
            polypeptide (NGF). This gene is located in a chromosomal region
            that is thought to contain tumor suppressor genes. [provided by
            RefSeq, Jul 2008].
            
            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 :: SRR1803612.39635.1,
                                           SRR1660807.82133.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000228437.10/ ENSP00000228437.5
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-181               BU502236.1         27-207
            182-981             AK056378.1         49-848
            982-4182            AL133083.1         317-3517
FEATURES             Location/Qualifiers
     source          1..4182
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="12"
                     /map="12q23.3"
     gene            1..4182
                     /gene="PRDM4"
                     /gene_synonym="PFM1"
                     /note="PR/SET domain 4"
                     /db_xref="GeneID:11108"
                     /db_xref="HGNC:HGNC:9348"
                     /db_xref="MIM:605780"
     exon            1..181
                     /gene="PRDM4"
                     /gene_synonym="PFM1"
                     /inference="alignment:Splign:2.1.0"
     exon            182..448
                     /gene="PRDM4"
                     /gene_synonym="PFM1"
                     /inference="alignment:Splign:2.1.0"
     CDS             438..2843
                     /gene="PRDM4"
                     /gene_synonym="PFM1"
                     /note="PR-domain zinc-finger protein PFM1; PR
                     domain-containing protein 4; PR domain containing 4; PR
                     domain 4"
                     /codon_start=1
                     /product="PR domain zinc finger protein 4"
                     /protein_id="NP_036538.3"
                     /db_xref="CCDS:CCDS9115.1"
                     /db_xref="GeneID:11108"
                     /db_xref="HGNC:HGNC:9348"
                     /db_xref="MIM:605780"
                     /translation="MHHRMNEMNLSPVGMEQLTSSSVSNALPVSGSHLGLAASPTHSA
                     IPAPGLPVAIPNLGPSLSSLPSALSLMLPMGIGDRGVMCGLPERNYTLPPPPYPHLES
                     SYFRTILPGILSYLADRPPPQYIHPNSINVDGNTALSITNNPSALDPYQSNGNVGLEP
                     GIVSIDSRSVNTHGAQSLHPSDGHEVALDTAITMENVSRVTSPISTDGMAEELTMDGV
                     AGEHSQIPNGSRSHEPLSVDSVSNNLAADAVGHGGVIPMHGNGLELPVVMETDHIASR
                     VNGMSDSALSDSIHTVAMSTNSVSVALSTSHNLASLESVSLHEVGLSLEPVAVSSITQ
                     EVAMGTGHVDVSSDSLSFVSPSLQMEDSNSNKENMATLFTIWCTLCDRAYPSDCPEHG
                     PVTFVPDTPIESRARLSLPKQLVLRQSIVGAEVGVWTGETIPVRTCFGPLIGQQSHSM
                     EVAEWTDKAVNHIWKIYHNGVLEFCIITTDENECNWMMFVRKARNREEQNLVAYPHDG
                     KIFFCTSQDIPPENELLFYYSRDYAQQIGVPEHPDVHLCNCGKECNSYTEFKAHLTSH
                     IHNHLPTQGHSGSHGPSHSKERKWKCSMCPQAFISPSKLHVHFMGHMGMKPHKCDFCS
                     KAFSDPSNLRTHLKIHTGQKNYRCTLCDKSFTQKAHLESHMVIHTGEKNLKCDYCDKL
                     FMRRQDLKQHVLIHTQERQIKCPKCDKLFLRTNHLKKHLNSHEGKRDYVCEKCTKAYL
                     TKYHLTRHLKTCKGPTSSSSAPEEEEEDDSEEEDLADSVGTEDCRINSAVYSADESLS
                     AHK"
     exon            449..582
                     /gene="PRDM4"
                     /gene_synonym="PFM1"
                     /inference="alignment:Splign:2.1.0"
     exon            583..768
                     /gene="PRDM4"
                     /gene_synonym="PFM1"
                     /inference="alignment:Splign:2.1.0"
     exon            769..1563
                     /gene="PRDM4"
                     /gene_synonym="PFM1"
                     /inference="alignment:Splign:2.1.0"
     exon            1564..1713
                     /gene="PRDM4"
                     /gene_synonym="PFM1"
                     /inference="alignment:Splign:2.1.0"
     exon            1714..1832
                     /gene="PRDM4"
                     /gene_synonym="PFM1"
                     /inference="alignment:Splign:2.1.0"
     exon            1833..1918
                     /gene="PRDM4"
                     /gene_synonym="PFM1"
                     /inference="alignment:Splign:2.1.0"
     exon            1919..2046
                     /gene="PRDM4"
                     /gene_synonym="PFM1"
                     /inference="alignment:Splign:2.1.0"
     exon            2047..2361
                     /gene="PRDM4"
                     /gene_synonym="PFM1"
                     /inference="alignment:Splign:2.1.0"
     exon            2362..2530
                     /gene="PRDM4"
                     /gene_synonym="PFM1"
                     /inference="alignment:Splign:2.1.0"
     exon            2531..4182
                     /gene="PRDM4"
                     /gene_synonym="PFM1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      4164..4169
                     /regulatory_class="polyA_signal_sequence"
                     /gene="PRDM4"
                     /gene_synonym="PFM1"
                     /note="hexamer: ATTAAA"
     polyA_site      4182
                     /gene="PRDM4"
                     /gene_synonym="PFM1"
                     /note="major polyA site"
ORIGIN      
        1 gcagagggtg cggcccagag gaggccgcgg gccgggaagg gccgggcggg acgggaaacg
       61 ttagggcagc ggcccccggg gtgagggggc cgagcggacg ggcagggccc cgaggcgaac
      121 tctgcccgga tgaggaacaa agcagtgggg caggcgcgtg cgcccccagc gcagctggca
      181 ggttgggcag cccccttccc gaagcttctg gacggaaggc cccaggtgtt ccccgagatg
      241 ccccaacccg tggcggggtg cacggccacc ggccctcggg agaagttggg cggccccggg
      301 cgaccccggg gacgagtggc cgcgtcggtg cagcggttgt gagcaagatg tggtagcacg
      361 tgaccctgga acgcaaaccc tgatgcctgt tccccaccac ccgagcgctc ctttctctga
      421 tatttggccc caagccgatg catcacagga tgaatgaaat gaacctgagt ccagtgggga
      481 tggagcagct gacttcatcc tctgtgagca atgccttgcc agtctcagga agtcacctgg
      541 gattggctgc ctcacccact cacagtgcca tccctgcccc aggcctccca gtggcaattc
      601 caaacctggg tccctccctg agctctctgc cttctgctct gtctttaatg ctaccaatgg
      661 gtattgggga tcgaggggtg atgtgtgggt tacctgaaag aaactacacc ctacctccac
      721 caccttaccc tcacctggag agcagttatt tcagaaccat tctacctggc attttatctt
      781 atttagctga cagaccacct ccacagtaca tccaccctaa ctctataaat gttgatggta
      841 atacagcatt atctatcacc aataaccctt cagcactaga tccctatcag tccaatggaa
      901 atgttggatt agaaccaggc attgtttcaa tagactctcg ctctgtgaac acacatggtg
      961 cccaaagtct tcatcccagt gatggccatg aggtggcctt ggacacagca atcactatgg
     1021 agaacgtttc tagggttacc agcccaattt cgacagatgg aatggcagag gagcttacga
     1081 tggacggtgt tgcaggcgag cattcccaaa tcccaaatgg ctccagaagt catgaacctc
     1141 tgtctgtgga ttctgtgagc aacaaccttg cagcagacgc tgtaggacat ggtggtgtga
     1201 tacccatgca tgggaatggc ctggagctcc ctgtggtcat ggagacagac cacattgcaa
     1261 gtcgggtcaa tggcatgtct gacagtgccc tcagtgactc cattcacact gtggccatga
     1321 gcaccaactc tgtaagcgtg gcactctcta cctcacacaa ccttgcctcc ctagaatctg
     1381 tttccctcca tgaagttggc ctcagcctag aacctgtggc tgtctcctcc atcacccagg
     1441 aggttgctat ggggacaggt catgtagatg tatcttcaga cagtctttct tttgtatcac
     1501 cttcactgca aatggaagac tccaattcaa acaaggagaa catggcaacc ttgtttacaa
     1561 tttggtgtac tctgtgtgac cgcgcctatc cctcggactg tcccgaacat ggaccagtga
     1621 cttttgttcc tgacactcca atagagagca gagcaaggct ttctctccca aagcagcttg
     1681 ttctccgtca gtcaattgtg ggagcagaag ttggtgtatg gactggagaa accattcctg
     1741 tgcggacttg ctttggacct ctaattggcc agcagagtca ctccatggaa gtagcagaat
     1801 ggacagacaa ggcagttaac catatctgga agatatacca caatggtgtc ctagaattct
     1861 gcatcattac aactgatgaa aatgaatgta attggatgat gtttgtgcgc aaagccagga
     1921 accgggaaga gcagaatttg gtggcttatc ctcatgatgg aaaaatcttt ttctgcacct
     1981 cacaagatat ccctcctgaa aatgaactgc ttttttatta tagccgagat tatgctcaac
     2041 agattggtgt tcctgaacac ccagatgtgc atctctgtaa ctgtggcaag gagtgcaatt
     2101 cttacacaga gttcaaagcc catctgacca gccacatcca taaccatctt cctacccagg
     2161 gacatagcgg cagccatggg ccaagtcaca gcaaagaaag gaagtggaag tgctcaatgt
     2221 gcccccaagc ttttatctct ccttccaaac ttcatgtcca ctttatgggt cacatgggta
     2281 tgaagcccca caagtgtgat ttctgtagca aggcttttag tgatcccagc aacctgcgga
     2341 cccacctcaa gatacataca ggtcagaaga actacaggtg taccttgtgt gacaagtctt
     2401 tcacccagaa ggctcacctg gagtcccaca tggttatcca cactggggag aagaatctta
     2461 agtgtgatta ctgtgacaag ttgtttatgc ggaggcagga cctcaagcag cacgtgctca
     2521 tccacactca agaacgccag atcaagtgtc ccaagtgtga taagctgttc ttgagaacaa
     2581 atcacttaaa gaagcatctc aattctcatg aaggaaaacg ggattatgtc tgtgaaaaat
     2641 gtacaaaggc ttatctaacc aaataccatc tcacccgcca cctgaaaacc tgcaaagggc
     2701 ccacctccag ttcgtcagca ccagaggagg aagaagagga tgactcagaa gaggaagatc
     2761 tagcagactc tgtggggaca gaagactgta ggattaacag tgctgtgtat tcagcggatg
     2821 agtctctttc tgcacataaa taaaaggaaa agaaacaagc aattttggat gaaaatgcaa
     2881 atggaaaaat acacataacc agttatctac tataatggtt tttatataaa atggttcctg
     2941 atttattttc agccagtaat caaaacagac tgggaatgaa taaagcactt acagaagagt
     3001 atcctaatga aaacacttta aaacagattg ggaaaactga gcatgtgtcc tgttttaagt
     3061 ggtggactgg gagggaagtg tcaacttctg aggtctttat ttacatgata atctgggaga
     3121 tgcatttatg cctgaatcaa agctgccttc tgctcaaaca aatcagattt atttcacatt
     3181 cttccattat tccattttcc tgctggtcct gtgacttggt aacattctaa acggtccttg
     3241 ccccatagcc atcctgattg ctgatagtgt tttatgcaga ctcttgtgac ttatactcac
     3301 cacagaatgg attgggacac agcagcataa gtgtgctact tggcagctag taagtttaaa
     3361 gcaggacctg ccttaactgc tcctggccac ttggaagttt agggtagatc ttgttttcca
     3421 aagtttcggc aggtgcctgg agggcaaata aaaaagcagc agtcagtcag tagtcagtga
     3481 tggagagaac aagaggagag atgcctggcc tctgcccaag aaattagctt tgatggaagc
     3541 ctgagcaagt cacctggtta ttgtaacgtg gagatctttg taggtttaga catggctccc
     3601 tgtctccagt aaacatccag ccattcagac aaagggggcc tggagataca gagagcccaa
     3661 ataatgcctg ctggattgtc tcctgatgag tacatgtgga ctcacctgag gaagggaagg
     3721 aagggaataa tcttttatgt ttcatttacc ttatgaaaag tgttaaaaca ttgccaactc
     3781 aaaataacat tatttaatgc atgtgcaaag ttaggtcttc ccagttgtct cagtgctgag
     3841 gaacctcatc agagaagcat ggaagatgcc aaaggatttt tggaaggtaa agaaggctga
     3901 atagtgacca catgggcctg ttttcagggt cccagcttag ttaagtcacc catgcacctg
     3961 gtcattgtgt ctcccatgca catccagcgt ttctcagaag cagacccacc cttaagttga
     4021 caggattgat ggaacatgct ctcctgctca aggcacaacc tctgggctgg agtagaggac
     4081 tctggtggga aggttttgct gctaatgtat ttatggaatg aatgtatttc attcaaatct
     4141 gtattcctct aggaaggatt aaaattaaac ttttttaaaa ta
//
