LOCUS       NM_015009               4251 bp    mRNA    linear   PRI 23-APR-2024
DEFINITION  Homo sapiens PDZ domain containing ring finger 3 (PDZRN3),
            transcript variant 1, mRNA.
ACCESSION   NM_015009 XM_041363
VERSION     NM_015009.3
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 4251)
  AUTHORS   Jiao,B., Zhang,H., Jiang,H., Liu,S., Wang,Y., Chen,Y., Duan,H.,
            Niu,Y., Shen,M., Wang,H. and Dai,Y.
  TITLE     Granulysin-mediated reduction of PDZRN3 induces Cx43 gap junctions
            activity exacerbating skin damage in trichloroethylene
            hypersensitivity syndrome
  JOURNAL   Ecotoxicol Environ Saf 274, 116174 (2024)
   PUBMED   38471344
  REMARK    GeneRIF: Granulysin-mediated reduction of PDZRN3 induces Cx43 gap
            junctions activity exacerbating skin damage in trichloroethylene
            hypersensitivity syndrome.
REFERENCE   2  (bases 1 to 4251)
  AUTHORS   Otsuka,Y., Furihata,T., Nakagawa,K., Ohno,Y., Reien,Y., Ouchi,M.,
            Wakashin,H., Tsuruoka,S. and Anzai,N.
  TITLE     Sodium-coupled monocarboxylate transporter 1 interacts with the
            RING finger- and PDZ domain-containing protein PDZRN3
  JOURNAL   J Physiol Sci 69 (4), 635-642 (2019)
   PUBMED   31098988
  REMARK    GeneRIF: PDZRN3 may regulate SMCT1 function by interfering with the
            interaction between SMCT1 and PDZK1.
REFERENCE   3  (bases 1 to 4251)
  AUTHORS   Thomas,M. and Banks,L.
  TITLE     PDZRN3/LNX3 is a novel target of human papillomavirus type 16
            (HPV-16) and HPV-18 E6
  JOURNAL   J Virol 89 (2), 1439-1444 (2015)
   PUBMED   25355882
  REMARK    GeneRIF: Authors show that HPV-16 and HPV-18 E6 can target PDZRN3
            in a PDZ- and proteasome-dependent manner and provide a connection
            between the papillomavirus life cycle and differentiation-related
            STAT signaling.
REFERENCE   4  (bases 1 to 4251)
  AUTHORS   Sewduth,R.N., Jaspard-Vinassa,B., Peghaire,C., Guillabert,A.,
            Franzl,N., Larrieu-Lahargue,F., Moreau,C., Fruttiger,M.,
            Dufourcq,P., Couffinhal,T. and Duplaa,C.
  TITLE     The ubiquitin ligase PDZRN3 is required for vascular morphogenesis
            through Wnt/planar cell polarity signalling
  JOURNAL   Nat Commun 5, 4832 (2014)
   PUBMED   25198863
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 4251)
  AUTHORS   Honda,T., Ishii,A. and Inui,M.
  TITLE     Regulation of adipocyte differentiation of 3T3-L1 cells by PDZRN3
  JOURNAL   Am J Physiol Cell Physiol 304 (11), C1091-C1097 (2013)
   PUBMED   23576576
REFERENCE   6  (bases 1 to 4251)
  AUTHORS   Murea,M., Lu,L., Ma,L., Hicks,P.J., Divers,J., McDonough,C.W.,
            Langefeld,C.D., Bowden,D.W. and Freedman,B.I.
  TITLE     Genome-wide association scan for survival on dialysis in
            African-Americans with type 2 diabetes
  JOURNAL   Am J Nephrol 33 (6), 502-509 (2011)
   PUBMED   21546767
REFERENCE   7  (bases 1 to 4251)
  AUTHORS   Honda,T., Yamamoto,H., Ishii,A. and Inui,M.
  TITLE     PDZRN3 negatively regulates BMP-2-induced osteoblast
            differentiation through inhibition of Wnt signaling
  JOURNAL   Mol Biol Cell 21 (18), 3269-3277 (2010)
   PUBMED   20668165
  REMARK    GeneRIF: These results indicate that PDZRN3 plays an important role
            in negative feedback control of BMP-2-induced osteoblast
            differentiation in C2C12 cells through inhibition of
            Wnt3a-beta-catenin signaling.
REFERENCE   8  (bases 1 to 4251)
  AUTHORS   Ko,J.A., Kimura,Y., Matsuura,K., Yamamoto,H., Gondo,T. and Inui,M.
  TITLE     PDZRN3 (LNX3, SEMCAP3) is required for the differentiation of C2C12
            myoblasts into myotubes
  JOURNAL   J Cell Sci 119 (Pt 24), 5106-5113 (2006)
   PUBMED   17118964
REFERENCE   9  (bases 1 to 4251)
  AUTHORS   Meyer,G., Varoqueaux,F., Neeb,A., Oschlies,M. and Brose,N.
  TITLE     The complexity of PDZ domain-mediated interactions at glutamatergic
            synapses: a case study on neuroligin
  JOURNAL   Neuropharmacology 47 (5), 724-733 (2004)
   PUBMED   15458844
REFERENCE   10 (bases 1 to 4251)
  AUTHORS   Katoh,M. and Katoh,M.
  TITLE     Identification and characterization of PDZRN3 and PDZRN4 genes in
            silico
  JOURNAL   Int J Mol Med 13 (4), 607-613 (2004)
   PUBMED   15010864
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AC117489.3, AB029018.1,
            DB727809.1 and AW661852.1.
            This sequence is a reference standard in the RefSeqGene project.
            
            On Nov 22, 2018 this sequence version replaced NM_015009.2.
            
            Summary: This gene encodes a member of the LNX (Ligand of Numb
            Protein-X) family of RING-type ubiquitin E3 ligases. This protein
            may function in vascular morphogenesis and the differentiation of
            adipocytes, osteoblasts and myoblasts. This protein may be targeted
            for degradation by the human papilloma virus E6 protein.
            Alternative splicing results in multiple transcript variants.
            [provided by RefSeq, Dec 2014].
            
            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 :: AB029018.1, SRR1803611.122628.1
                                           [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000263666.9/ ENSP00000263666.4
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-20                AC117489.3         128149-128168       c
            21-514              AB029018.1         1-494
            515-515             DB727809.1         515-515
            516-4181            AB029018.1         496-4161
            4182-4251           AW661852.1         14-83               c
FEATURES             Location/Qualifiers
     source          1..4251
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="3"
                     /map="3p13"
     gene            1..4251
                     /gene="PDZRN3"
                     /gene_synonym="LNX3; SEMACAP3; SEMCAP3"
                     /note="PDZ domain containing ring finger 3"
                     /db_xref="GeneID:23024"
                     /db_xref="HGNC:HGNC:17704"
                     /db_xref="MIM:609729"
     exon            1..839
                     /gene="PDZRN3"
                     /gene_synonym="LNX3; SEMACAP3; SEMCAP3"
                     /inference="alignment:Splign:2.1.0"
     CDS             117..3317
                     /gene="PDZRN3"
                     /gene_synonym="LNX3; SEMACAP3; SEMCAP3"
                     /EC_number="2.3.2.27"
                     /note="isoform 1 is encoded by transcript variant 1;
                     likely ortholog of mouse semaF cytoplasmic domain
                     associated protein 3; E3 ubiquitin-protein ligase PDZRN3;
                     ligand of Numb protein X 3; semaphorin cytoplasmic
                     domain-associated protein 3; RING-type E3 ubiquitin
                     transferase PDZRN3"
                     /codon_start=1
                     /product="E3 ubiquitin-protein ligase PDZRN3 isoform 1"
                     /protein_id="NP_055824.1"
                     /db_xref="CCDS:CCDS33789.1"
                     /db_xref="GeneID:23024"
                     /db_xref="HGNC:HGNC:17704"
                     /db_xref="MIM:609729"
                     /translation="MGFELDRFDGDVDPDLKCALCHKVLEDPLTTPCGHVFCAGCVLP
                     WVVQEGSCPARCRGRLSAKELNHVLPLKRLILKLDIKCAYATRGCGRVVKLQQLPEHL
                     ERCDFAPARCRHAGCGQVLLRRDVEAHMRDACDARPVGRCQEGCGLPLTHGEQRAGGH
                     CCARALRAHNGALQARLGALHKALKKEALRAGKREKSLVAQLAAAQLELQMTALRYQK
                     KFTEYSARLDSLSRCVAAPPGGKGEETKSLTLVLHRDSGSLGFNIIGGRPSVDNHDGS
                     SSEGIFVSKIVDSGPAAKEGGLQIHDRIIEVNGRDLSRATHDQAVEAFKTAKEPIVVQ
                     VLRRTPRTKMFTPPSESQLVDTGTQTDITFEHIMALTKMSSPSPPVLDPYLLPEEHPS
                     AHEYYDPNDYIGDIHQEMDREELELEEVDLYRMNSQDKLGLTVCYRTDDEDDIGIYIS
                     EIDPNSIAAKDGRIREGDRIIQINGIEVQNREEAVALLTSEENKNFSLLIARPELQLD
                     EGWMDDDRNDFLDDLHMDMLEEQHHQAMQFTASVLQQKKHDEDGGTTDTATILSNQHE
                     KDSGVGRTDESTRNDESSEQENNGDDATASSNPLAGQRKLTCSQDTLGSGDLPFSNES
                     FISADCTDADYLGIPVDECERFRELLELKCQVKSATPYGLYYPSGPLDAGKSDPESVD
                     KELELLNEELRSIELECLSIVRAHKMQQLKEQYRESWMLHNSGFRNYNTSIDVRRHEL
                     SDITELPEKSDKDSSSAYNTGESCRSTPLTLEISPDNSLRRAAEGISCPSSEGAVGTT
                     EAYGPASKNLLSITEDPEVGTPTYSPSLKELDPNQPLESKERRASDGSRSPTPSQKLG
                     SAYLPSYHHSPYKHAHIPAHAQHYQSYMQLIQQKSAVEYAQSQMSLVSMCKDLSSPTP
                     SEPRMEWKVKIRSDGTRYITKRPVRDRLLRERALKIREERSGMTTDDDAVSEMKMGRY
                     WSKEERKQHLVKAKEQRRRREFMMQSRLDCLKEQQAADDRKEMNILELSHKKMMKKRN
                     KKIFDNWMTIQELLTHGTKSPDGTRVYNSFLSVTTV"
     exon            840..926
                     /gene="PDZRN3"
                     /gene_synonym="LNX3; SEMACAP3; SEMCAP3"
                     /inference="alignment:Splign:2.1.0"
     exon            927..1034
                     /gene="PDZRN3"
                     /gene_synonym="LNX3; SEMACAP3; SEMCAP3"
                     /inference="alignment:Splign:2.1.0"
     exon            1035..1282
                     /gene="PDZRN3"
                     /gene_synonym="LNX3; SEMACAP3; SEMCAP3"
                     /inference="alignment:Splign:2.1.0"
     exon            1283..1370
                     /gene="PDZRN3"
                     /gene_synonym="LNX3; SEMACAP3; SEMCAP3"
                     /inference="alignment:Splign:2.1.0"
     exon            1371..1469
                     /gene="PDZRN3"
                     /gene_synonym="LNX3; SEMACAP3; SEMCAP3"
                     /inference="alignment:Splign:2.1.0"
     exon            1470..1532
                     /gene="PDZRN3"
                     /gene_synonym="LNX3; SEMACAP3; SEMCAP3"
                     /inference="alignment:Splign:2.1.0"
     exon            1533..1634
                     /gene="PDZRN3"
                     /gene_synonym="LNX3; SEMACAP3; SEMCAP3"
                     /inference="alignment:Splign:2.1.0"
     exon            1635..1751
                     /gene="PDZRN3"
                     /gene_synonym="LNX3; SEMACAP3; SEMCAP3"
                     /inference="alignment:Splign:2.1.0"
     exon            1752..4251
                     /gene="PDZRN3"
                     /gene_synonym="LNX3; SEMACAP3; SEMCAP3"
                     /inference="alignment:Splign:2.1.0"
     regulatory      4164..4169
                     /regulatory_class="polyA_signal_sequence"
                     /gene="PDZRN3"
                     /gene_synonym="LNX3; SEMACAP3; SEMCAP3"
                     /note="hexamer: AATAAA"
     polyA_site      4187
                     /gene="PDZRN3"
                     /gene_synonym="LNX3; SEMACAP3; SEMCAP3"
                     /note="major polyA site"
     regulatory      4230..4235
                     /regulatory_class="polyA_signal_sequence"
                     /gene="PDZRN3"
                     /gene_synonym="LNX3; SEMACAP3; SEMCAP3"
                     /note="hexamer: AATAAA"
     polyA_site      4251
                     /gene="PDZRN3"
                     /gene_synonym="LNX3; SEMACAP3; SEMCAP3"
                     /note="major polyA site"
ORIGIN      
        1 agtccgggga gagccagcga gcgcgcgggc ggcgtagccg gcctgtctgg gccgcctcgt
       61 ggggagggag ggggcgcccg gccgcccggc ggcgaccccg gggcctggcc gccaccatgg
      121 gcttcgagct ggaccgcttc gacggcgacg tggacccgga cctgaagtgc gcgctgtgcc
      181 acaaggtcct ggaggacccg ctgaccacgc cgtgcggcca cgtcttctgc gccggctgcg
      241 tgctgccctg ggtggtgcag gagggcagct gcccggcgcg ctgccgcggt cgcctgtcgg
      301 ccaaagagct caaccacgtc ctgccgctca agcgccttat cctcaagctg gacatcaagt
      361 gcgcgtacgc gacgcgcggc tgcggccggg tggtcaagct gcagcagctg ccggagcacc
      421 tcgagcgctg cgacttcgcg cccgcgcgct gtcgccacgc gggttgcggc caggtgctgc
      481 tgcggcgcga cgtggaggcg cacatgcgcg acgcctgcga cgcgcggcca gtgggccgct
      541 gccaggaggg ctgcgggcta cccttgacgc acggcgagca gcgcgcgggc ggccactgct
      601 gcgcgcgagc gctgcgggcg cacaacggcg cgctccaggc ccgcctgggc gcgctgcaca
      661 aggcgctcaa gaaggaggcg ctgcgcgctg ggaagcgcga gaagtcgctg gtggcccagc
      721 tggccgcggc gcagcttgag ctgcagatga ccgcgctgcg ctaccagaag aaattcaccg
      781 aatacagcgc gcgcctcgac tcgctcagcc gctgcgtggc cgcgccgccc ggcggcaagg
      841 gcgaagaaac caaaagtctg actcttgtcc tgcatcggga ctccggctcc ctgggattca
      901 atattattgg tggccggccg agtgtggata accacgatgg atcatccagt gaaggaatct
      961 ttgtatccaa gatagttgac agtgggcctg cagccaagga aggaggcctg caaattcatg
     1021 acaggattat tgaggtcaac ggcagagact tatccagagc aactcatgac caggctgtgg
     1081 aagctttcaa gacagccaag gagcccatag tggtgcaggt gttgagaaga acaccaagga
     1141 ccaaaatgtt cacgcctcca tcagagtctc agctggtgga cacgggaacc caaaccgaca
     1201 tcacctttga acatatcatg gccctcacta agatgtcctc tcccagccca cccgtgctgg
     1261 atccctatct cttgccagag gagcatccct cagcccatga atactacgat ccaaatgact
     1321 acattggaga catccatcag gagatggaca gggaggagct ggagctggag gaagtggacc
     1381 tctacagaat gaacagccag gacaagctgg gcctcactgt gtgctaccgg acggacgatg
     1441 aagacgacat tgggatttat atcagtgaga ttgaccctaa cagcattgca gccaaggatg
     1501 ggcgcatccg agaaggagac cgcattatcc agattaatgg gatagaggtg cagaaccgtg
     1561 aagaggctgt ggctcttcta accagtgaag aaaataaaaa cttttcattg ctgattgcaa
     1621 ggcctgaact ccagctggat gagggctgga tggatgatga caggaacgac tttctggatg
     1681 acctgcacat ggacatgctg gaggagcagc accaccaggc catgcaattc acagctagcg
     1741 tgctgcagca gaagaagcac gacgaagacg gtgggaccac agatacagcc accatcttgt
     1801 ccaaccagca cgagaaggac agcggtgtgg ggcggaccga cgagagcacc cgtaatgacg
     1861 agagctcgga gcaagagaac aatggcgacg acgccaccgc atcctccaac ccgctggcgg
     1921 ggcagaggaa gctcacctgc agccaggaca ccttgggcag cggcgacctg cccttcagca
     1981 acgagtcttt catttcggcc gactgcacgg acgccgacta cctggggatc ccggtggacg
     2041 agtgcgagcg cttccgcgag ctcctggagc tcaagtgcca ggtgaagagc gccacccctt
     2101 acggcctgta ctaccctagc ggccccctgg acgccggcaa gagtgaccct gagagcgtgg
     2161 acaaggagct ggagctgctg aacgaagagc tgcgcagcat cgagctggag tgcctgagca
     2221 tcgtgcgcgc ccacaagatg cagcagctca aggagcagta ccgcgagtcc tggatgctgc
     2281 acaacagcgg cttccgcaac tacaacacca gcatcgacgt gcgcagacac gagctctcag
     2341 atatcaccga gctcccggag aaatccgaca aggacagctc gagcgcctac aacacaggcg
     2401 agagctgccg cagcaccccg ctcaccctgg agatctcccc cgacaactcc ttgaggagag
     2461 cggcggaggg catcagctgc ccgagcagcg aaggggctgt ggggaccacg gaagcctacg
     2521 ggccagcctc caagaatctg ctctccatca cggaagatcc cgaagtgggc acccctacct
     2581 atagcccgtc cctgaaggag ctggacccca accagcccct ggaaagcaaa gagcggagag
     2641 ccagcgacgg gagccggagc cccacgccca gccagaagct gggcagcgcc tacctgccct
     2701 cctatcacca ctccccatac aagcacgcgc acatcccggc gcacgcccag cactaccaga
     2761 gctacatgca gctgatccag cagaagtcgg ccgtggagta cgcgcaaagc cagatgagcc
     2821 tggtgagcat gtgcaaggac ctgagctctc ccaccccgtc ggagccgcgc atggagtgga
     2881 aggtgaagat ccgcagcgac gggacgcgct acatcaccaa gaggcccgtg cgggaccgcc
     2941 tgctgcggga gcgcgccctg aagatccggg aagagcgcag cggcatgacc accgacgacg
     3001 acgcggtgag cgagatgaag atggggcgct actggagcaa ggaggagagg aagcagcacc
     3061 tggtgaaggc caaggagcag cggcggcggc gcgagttcat gatgcagagc aggttggatt
     3121 gtctcaagga gcagcaagca gccgatgaca ggaaggagat gaacattctc gaactgagcc
     3181 acaaaaagat gatgaagaag aggaataaga aaatcttcga taactggatg acgatccaag
     3241 aactcttaac ccacggcaca aaatccccgg acggcactag agtatacaat tccttcctat
     3301 cggtgactac tgtataattt tcacttctgc attatgtaca taaaggagac cactaccact
     3361 ggggtagaaa ttcctgcctc gttcaatgcg gcaagttttt gtatataaga taagtacggt
     3421 cttcatgttt atagtccaaa tttgcaaacc ctacaactct gggtgtcata ggtctatttt
     3481 aagggaagag agagaaaaac acccttacta tcttggaagg caatattaac aaacagagct
     3541 tttttcaaat agcaattgta cttttctacc tgtacccttt tacataaagt gtttaaattt
     3601 cagaaagatc ttttattaag catactttca cagaataact tgtttaaact atattcatat
     3661 aaaaaagtta aacacgcttt ttttcctgcc taaaacacaa atacaactgc cagtatgtat
     3721 ttttaatgga accctatttt ataatggtac gttactgaat gtgtttcata tgcgtgaccg
     3781 ttaagatatt atcatttagg tgaaggtttc aactcaaaac cacccaaccc ggtggttaac
     3841 gatttaatac atataaccaa accggcagcg tttagagttg ggatatacat ttaaacattt
     3901 tcctggttaa ggttcccaag agagtgtaaa ggttttagca gaaagcaaaa tatcttgcat
     3961 ctttatggaa gtttaaagca tgtttgcaaa tattgcagcc cattgaaaga atttgcatgt
     4021 acaggaaagt tgtggatgga gacggtttgt ggaattttaa gtgctcattg tagtaaactt
     4081 ttgctttgta gatttgaagg tacagactta tacaggcaag ttcacaaaat catgattagt
     4141 tacaaacagt aaaatgaagt taaaataaat tattattttc tatttgatat gttttgatgt
     4201 gattcctcat tttgcagtgg tgcctataaa ataaaagcct tttgcagtgt t
//
