LOCUS       NM_133743               1659 bp    mRNA    linear   ROD 10-FEB-2025
DEFINITION  Mus musculus Ly6/Plaur domain containing 3 (Lypd3), mRNA.
ACCESSION   NM_133743
VERSION     NM_133743.1
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Mus musculus (house mouse)
  ORGANISM  Mus musculus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Mus; Mus.
REFERENCE   1  (bases 1 to 1659)
  AUTHORS   Adams,D.J., Barlas,B., McIntyre,R.E., Salguero,I., van der
            Weyden,L., Barros,A., Vicente,J.R., Karimpour,N., Haider,A.,
            Ranzani,M., Turner,G., Thompson,N.A., Harle,V., Olvera-Leon,R.,
            Robles-Espinoza,C.D., Speak,A.O., Geisler,N., Weninger,W.J.,
            Geyer,S.H., Hewinson,J., Karp,N.A., Fu,B., Yang,F., Kozik,Z.,
            Choudhary,J., Yu,L., van Ruiten,M.S., Rowland,B.D., Lelliott,C.J.,
            Del Castillo Velasco-Herrera,M., Verstraten,R., Bruckner,L.,
            Henssen,A.G., Rooimans,M.A., de Lange,J., Mohun,T.J., Arends,M.J.,
            Kentistou,K.A., Coelho,P.A., Zhao,Y., Zecchini,H., Perry,J.R.B.,
            Jackson,S.P. and Balmus,G.
  CONSRTM   Sanger Mouse Genetics Project
  TITLE     Genetic determinants of micronucleus formation in vivo
  JOURNAL   Nature 627 (8002), 130-136 (2024)
   PUBMED   38355793
REFERENCE   2  (bases 1 to 1659)
  AUTHORS   Jacobsen,B., Larouche,D., Rochette-Drouin,O., Ploug,M. and
            Germain,L.
  TITLE     Expression of C4.4A in an In Vitro Human Tissue-Engineered Skin
            Model
  JOURNAL   Biomed Res Int 2017, 2403072 (2017)
   PUBMED   29075641
  REMARK    GeneRIF: Our results are consistent with previous data in mouse
            embryogenesis and wound healing. Based on these findings, we
            conclude that this human TES model provides an excellent surrogate
            for studies of C4.4A and Haldisin expressions in human stratified
            epithelia.
REFERENCE   3  (bases 1 to 1659)
  AUTHORS   Dickinson,M.E., Flenniken,A.M., Ji,X., Teboul,L., Wong,M.D.,
            White,J.K., Meehan,T.F., Weninger,W.J., Westerberg,H., Adissu,H.,
            Baker,C.N., Bower,L., Brown,J.M., Caddle,L.B., Chiani,F., Clary,D.,
            Cleak,J., Daly,M.J., Denegre,J.M., Doe,B., Dolan,M.E., Edie,S.M.,
            Fuchs,H., Gailus-Durner,V., Galli,A., Gambadoro,A., Gallegos,J.,
            Guo,S., Horner,N.R., Hsu,C.W., Johnson,S.J., Kalaga,S., Keith,L.C.,
            Lanoue,L., Lawson,T.N., Lek,M., Mark,M., Marschall,S., Mason,J.,
            McElwee,M.L., Newbigging,S., Nutter,L.M., Peterson,K.A.,
            Ramirez-Solis,R., Rowland,D.J., Ryder,E., Samocha,K.E.,
            Seavitt,J.R., Selloum,M., Szoke-Kovacs,Z., Tamura,M., Trainor,A.G.,
            Tudose,I., Wakana,S., Warren,J., Wendling,O., West,D.B., Wong,L.,
            Yoshiki,A., MacArthur,D.G., Tocchini-Valentini,G.P., Gao,X.,
            Flicek,P., Bradley,A., Skarnes,W.C., Justice,M.J., Parkinson,H.E.,
            Moore,M., Wells,S., Braun,R.E., Svenson,K.L., de Angelis,M.H.,
            Herault,Y., Mohun,T., Mallon,A.M., Henkelman,R.M., Brown,S.D.,
            Adams,D.J., Lloyd,K.C., McKerlie,C., Beaudet,A.L., Bucan,M. and
            Murray,S.A.
  CONSRTM   International Mouse Phenotyping Consortium; Jackson Laboratory;
            Infrastructure Nationale PHENOMIN, Institut Clinique de la Souris
            (ICS); Charles River Laboratories; MRC Harwell; Toronto Centre for
            Phenogenomics; Wellcome Trust Sanger Institute; RIKEN BioResource
            Center
  TITLE     High-throughput discovery of novel developmental phenotypes
  JOURNAL   Nature 537 (7621), 508-514 (2016)
   PUBMED   27626380
  REMARK    Erratum:[Nature. 2017 Nov 16;551(7680):398. doi:
            10.1038/nature24643.. PMID: 29144450]
REFERENCE   4  (bases 1 to 1659)
  AUTHORS   Kriegbaum,M.C., Jacobsen,B., Fuchtbauer,A., Hansen,G.H.,
            Christensen,I.J., Rundsten,C.F., Persson,M., Engelholm,L.H.,
            Madsen,A.N., Di Meo,I., Lund,I.K., Holst,B., Kjaer,A., Laerum,O.D.,
            Fuchtbauer,E.M. and Ploug,M.
  TITLE     C4.4A gene ablation is compatible with normal epidermal development
            and causes modest overt phenotypes
  JOURNAL   Sci Rep 6, 25833 (2016)
   PUBMED   27169360
  REMARK    GeneRIF: the first C4.4A-deficient mouse line was characterized to
            gain insight into the functional significance of C4.4A in normal
            physiology and cancer progression.
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 1659)
  AUTHORS   Loughner,C.L., Bruford,E.A., McAndrews,M.S., Delp,E.E.,
            Swamynathan,S. and Swamynathan,S.K.
  TITLE     Organization, evolution and functions of the human and mouse
            Ly6/uPAR family genes
  JOURNAL   Hum Genomics 10, 10 (2016)
   PUBMED   27098205
  REMARK    Review article
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 1659)
  AUTHORS   Koscielny,G., Yaikhom,G., Iyer,V., Meehan,T.F., Morgan,H.,
            Atienza-Herrero,J., Blake,A., Chen,C.K., Easty,R., Di Fenza,A.,
            Fiegel,T., Grifiths,M., Horne,A., Karp,N.A., Kurbatova,N.,
            Mason,J.C., Matthews,P., Oakley,D.J., Qazi,A., Regnart,J.,
            Retha,A., Santos,L.A., Sneddon,D.J., Warren,J., Westerberg,H.,
            Wilson,R.J., Melvin,D.G., Smedley,D., Brown,S.D., Flicek,P.,
            Skarnes,W.C., Mallon,A.M. and Parkinson,H.
  TITLE     The International Mouse Phenotyping Consortium Web Portal, a
            unified point of access for knockout mice and related phenotyping
            data
  JOURNAL   Nucleic Acids Res 42 (Database issue), D802-D809 (2014)
   PUBMED   24194600
REFERENCE   7  (bases 1 to 1659)
  AUTHORS   Kriegbaum,M.C., Jacobsen,B., Hald,A. and Ploug,M.
  TITLE     Expression of C4.4A, a structural uPAR homolog, reflects squamous
            epithelial differentiation in the adult mouse and during
            embryogenesis
  JOURNAL   J Histochem Cytochem 59 (2), 188-201 (2011)
   PUBMED   21339181
  REMARK    GeneRIF: a possible functional role of C4.4A in early
            differentiation of stratified squamous epithelia
REFERENCE   8  (bases 1 to 1659)
  AUTHORS   Paret,C., Bourouba,M., Beer,A., Miyazaki,K., Schnolzer,M.,
            Fiedler,S. and Zoller,M.
  TITLE     Ly6 family member C4.4A binds laminins 1 and 5, associates with
            galectin-3 and supports cell migration
  JOURNAL   Int J Cancer 115 (5), 724-733 (2005)
   PUBMED   15729693
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from BC016549.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC016549.1, AK009998.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849375, SAMN00849376
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
FEATURES             Location/Qualifiers
     source          1..1659
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="FVB/N"
                     /db_xref="taxon:10090"
                     /chromosome="7"
                     /map="7 11.95 cM"
     gene            1..1659
                     /gene="Lypd3"
                     /gene_synonym="2310061G07Rik; C4.4a"
                     /note="Ly6/Plaur domain containing 3"
                     /db_xref="GeneID:72434"
                     /db_xref="MGI:MGI:1919684"
     exon            1..105
                     /gene="Lypd3"
                     /gene_synonym="2310061G07Rik; C4.4a"
                     /inference="alignment:Splign:2.1.0"
     CDS             21..1112
                     /gene="Lypd3"
                     /gene_synonym="2310061G07Rik; C4.4a"
                     /note="GPI-anchored metastasis-associated protein homolog;
                     ly6/PLAUR domain-containing protein 3; GPI-anchored
                     metastasis-associated protein C4.4A homolog"
                     /codon_start=1
                     /product="ly6/PLAUR domain-containing protein 3 precursor"
                     /protein_id="NP_598504.1"
                     /db_xref="CCDS:CCDS20958.1"
                     /db_xref="GeneID:72434"
                     /db_xref="MGI:MGI:1919684"
                     /translation="MDAARRGDTQPVMWTTGWLLLLPLLLCEGAQALECYSCVQKADD
                     GCSPHRMKTVKCGPGVDVCTEAVGAVETIHGQFSVAVRGCGSGIPGKNDRGLDLHGLL
                     AFFQLQQCSEDRCNAKLNLTLRGLNPAGNESAYEPNGAECYSCVGLSREKCQGSMPPV
                     VNCYNASGRVYKGCFDGNVTLTAANVTVSLPVRGCVQDETCTRDGVTGPGFTLSGSCC
                     QGPRCNADLRNKTYFSPRIPPLVLLPPPTTAAPSTRAQNSSSTTSTAAPTTTTSIIKP
                     TTAQASHTSPHEMDLEVIQEEGASLSGGAAGHGGTAGHGGAAGHQDRSNMEKYPGKGG
                     AQIPAKGGSGTLGSWLSAVLLTVVAGAML"
     exon            106..237
                     /gene="Lypd3"
                     /gene_synonym="2310061G07Rik; C4.4a"
                     /inference="alignment:Splign:2.1.0"
     exon            238..408
                     /gene="Lypd3"
                     /gene_synonym="2310061G07Rik; C4.4a"
                     /inference="alignment:Splign:2.1.0"
     exon            409..570
                     /gene="Lypd3"
                     /gene_synonym="2310061G07Rik; C4.4a"
                     /inference="alignment:Splign:2.1.0"
     exon            571..1629
                     /gene="Lypd3"
                     /gene_synonym="2310061G07Rik; C4.4a"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1592..1597
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Lypd3"
                     /gene_synonym="2310061G07Rik; C4.4a"
                     /note="hexamer: AATAAA"
     polyA_site      1629
                     /gene="Lypd3"
                     /gene_synonym="2310061G07Rik; C4.4a"
                     /note="major polyA site"
ORIGIN      
        1 ggagagagca ggacacagct atggatgccg ccaggagagg agatacacag ccagtgatgt
       61 ggaccaccgg atggctgttg ctgctgccgc ttctgctgtg tgaaggagcg caagccctgg
      121 agtgctacag ctgcgtgcag aaggcggacg atggatgctc tccgcacagg atgaagacag
      181 tcaaatgtgg tcccggggtg gacgtctgta ccgaggccgt gggagcggta gagaccatcc
      241 acgggcaatt ctctgtggcg gtgcggggct gcggttccgg aatcccgggc aagaacgacc
      301 gcggactgga ccttcacggg ctcctggcct tctttcagct acagcagtgc tccgaggacc
      361 gatgcaacgc caaactcaac ctcactttgc gaggcctcaa ccctgcaggc aatgagagtg
      421 catatgagcc taacggtgca gagtgctaca gctgtgtggg tctgagccgc gagaagtgcc
      481 agggctccat gccgccggtc gtgaactgct acaacgccag tggccgtgtc tacaagggct
      541 gcttcgatgg taacgtcacc ctgacggcag ccaacgtgac cgtgtcctta cctgtccgag
      601 gctgcgtcca ggacgagacc tgcacccggg atggggtgac gggtccagga ttcacactca
      661 gcggctcttg ctgtcagggc ccccgctgta acgccgacct tcgcaacaag acctatttct
      721 cccctcgaat cccaccccta gtcctgctgc cccctccaac caccgcagcc ccatccactc
      781 gggcccagaa ctcctccagc acgacctcta cagcagcccc aaccacgacc acctccatca
      841 tcaagcccac cacagcccaa gccagccaca cttctcccca tgaaatggat ctcgaagtca
      901 tacaggaaga gggggcgtcg ttgagtggag gtgctgcggg ccatggaggt actgcgggcc
      961 atggaggtgc tgcgggccac caagaccgca gcaatatgga gaagtatcca ggaaagggtg
     1021 gggcccagat cccagctaaa ggaggctctg gcactctagg gtcctggttg tctgcagttc
     1081 tgttgactgt ggttgctggc gcgatgctgt gaatgtctca tctcgaaaag tccatctcac
     1141 tttgtttccc tggccccgtg gtaccaactc tttccatttc tcacttgact ggactggctc
     1201 cgcccccatc cttcagcatt ctcagttccg actgcactgg tttgcagctt cggaaaacag
     1261 tcctctgttg taaatattcc gctcgggtgg ccctactttt ttgatgcggc cacagcattc
     1321 cccctgatgg tgaccaggac agagggaaga gacgtctact ggctgagaga ggcccagaga
     1381 gtccacggca agcctcctct tcccgttttc ctgaccaggc tggaagatga ccaggcaggt
     1441 agacaatgga tccatcctcc gagcactgtg cttgcctggc acattgtgcg gaaatctggt
     1501 cgcctgtctt ccttaggaga ctgtgaacaa ctctacaaca gggtcttgtc tctggcctct
     1561 ctatgtgttc tgtctggcac aggaaggtgt caataaagat ttagttactt tgtatagtga
     1621 gttaactaaa aaaaaaaaaa aaaaaaaaaa aaaaaaaaa
//
