LOCUS       NM_027872               4978 bp    mRNA    linear   ROD 11-FEB-2025
DEFINITION  Mus musculus solute carrier family 46, member 3 (Slc46a3),
            transcript variant 1, mRNA.
ACCESSION   NM_027872
VERSION     NM_027872.4
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 4978)
  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 4978)
  AUTHORS   Bharadwaj,R., Lusi,C.F., Mashayekh,S., Nagar,A., Subbarao,M.,
            Kane,G.I., Wodzanowski,K.A., Brown,A.R., Okuda,K., Monahan,A.,
            Paik,D., Nandy,A., Anonick,M.V., Goldman,W.E., Kanneganti,T.D.,
            Orzalli,M.H., Grimes,C.L., Atukorale,P.U. and Silverman,N.
  TITLE     Methotrexate suppresses psoriatic skin inflammation by inhibiting
            muropeptide transporter SLC46A2 activity
  JOURNAL   Immunity 56 (5), 998-1012 (2023)
   PUBMED   37116499
REFERENCE   3  (bases 1 to 4978)
  AUTHORS   Kim,J.H., Matsubara,T., Lee,J., Fenollar-Ferrer,C., Han,K., Kim,D.,
            Jia,S., Chang,C.J., Yang,H., Nagano,T., Krausz,K.W., Yim,S.H. and
            Gonzalez,F.J.
  TITLE     Lysosomal SLC46A3 modulates hepatic cytosolic copper homeostasis
  JOURNAL   Nat Commun 12 (1), 290 (2021)
   PUBMED   33436590
  REMARK    GeneRIF: Lysosomal SLC46A3 modulates hepatic cytosolic copper
            homeostasis.
            Publication Status: Online-Only
REFERENCE   4  (bases 1 to 4978)
  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   5  (bases 1 to 4978)
  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   6  (bases 1 to 4978)
  AUTHORS   Gineste,C., De Winter,J.M., Kohl,C., Witt,C.C., Giannesini,B.,
            Brohm,K., Le Fur,Y., Gretz,N., Vilmen,C., Pecchi,E., Jubeau,M.,
            Cozzone,P.J., Stienen,G.J., Granzier,H., Labeit,S.,
            Ottenheijm,C.A., Bendahan,D. and Gondin,J.
  TITLE     In vivo and in vitro investigations of heterozygous nebulin
            knock-out mice disclose a mild skeletal muscle phenotype
  JOURNAL   Neuromuscul Disord 23 (4), 357-369 (2013)
   PUBMED   23375831
REFERENCE   7  (bases 1 to 4978)
  AUTHORS   O'Leary,J. and Osborne,L.R.
  TITLE     Global analysis of gene expression in the developing brain of
            Gtf2ird1 knockout mice
  JOURNAL   PLoS One 6 (8), e23868 (2011)
   PUBMED   21909369
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC133954.3 and AC122299.5.
            
            On Oct 14, 2017 this sequence version replaced NM_027872.3.
            
            Transcript Variant: This variant (1) represents the longer
            transcript. Variants 1 and 2 both encode the same protein.
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on alignments.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AK156898.1, SRR13422592.320558.1
                                           [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMN00849374,
                                           SAMN00849375 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-335               AC133954.3         153327-153661
            336-548             AC133954.3         154097-154309
            549-1419            AC133954.3         161301-162171
            1420-1503           AC133954.3         163862-163945
            1504-1660           AC122299.5         205127-205283       c
            1661-4978           AC122299.5         201331-204648       c
FEATURES             Location/Qualifiers
     source          1..4978
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="5"
                     /map="5 87.58 cM"
     gene            1..4978
                     /gene="Slc46a3"
                     /gene_synonym="1200006F02Rik"
                     /note="solute carrier family 46, member 3"
                     /db_xref="GeneID:71706"
                     /db_xref="MGI:MGI:1918956"
     exon            1..335
                     /gene="Slc46a3"
                     /gene_synonym="1200006F02Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            336..548
                     /gene="Slc46a3"
                     /gene_synonym="1200006F02Rik"
                     /inference="alignment:Splign:2.1.0"
     CDS             360..1742
                     /gene="Slc46a3"
                     /gene_synonym="1200006F02Rik"
                     /note="lysosomal proton-coupled steroid conjugate and bile
                     acid symporter SLC46A3"
                     /codon_start=1
                     /product="lysosomal proton-coupled steroid conjugate and
                     bile acid symporter SLC46A3 precursor"
                     /protein_id="NP_082148.1"
                     /db_xref="CCDS:CCDS19880.1"
                     /db_xref="GeneID:71706"
                     /db_xref="MGI:MGI:1918956"
                     /translation="MKISFIEPAILLNAFAMTLTIPLTAQYVYRRIWEETGNYTFASN
                     SNGSECDQNKSSSIFAFREEVQKKASLFNLQVEMSALIPGLVSTFMLLASSDNHGRKL
                     PMVLSSLGSLGTNTWLCMMSYFDLPLQLLIASTFIGALFGNYTTFWGACFAYIVDQQK
                     EYKHRIIRIAILDFMLGVVTGLTGLSSGYFIRELGFVWSYFITAMVLIVNLAYILFFL
                     NDPIKESSSQIVTMSCIESLKDLFYRTYMLFKNGSSKRQALLCLLIFTLVIYFFVIIG
                     ISPIFTLYELGPPLCWNEVYIGYGSALGSVSFLSSFLGIWLFSYCLKDIHIAYIGIFT
                     TMVGMTLAAFTRTTLMMFLVRIPFIFTIMPLSVLRSMLSKVVHSTEQGALFACIAFLE
                     TLAGVTSTSAYSGIYSATVAWYPGFIFLLSAGLLVLPAISLCCVKSIGWEEGSYTLLV
                     HEEPSEHTSD"
     exon            549..1419
                     /gene="Slc46a3"
                     /gene_synonym="1200006F02Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1420..1503
                     /gene="Slc46a3"
                     /gene_synonym="1200006F02Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1504..1660
                     /gene="Slc46a3"
                     /gene_synonym="1200006F02Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1661..4978
                     /gene="Slc46a3"
                     /gene_synonym="1200006F02Rik"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2404..2409
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Slc46a3"
                     /gene_synonym="1200006F02Rik"
                     /note="hexamer: AATGAA"
     polyA_site      2425
                     /gene="Slc46a3"
                     /gene_synonym="1200006F02Rik"
                     /note="major polyA site"
     regulatory      2534..2539
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Slc46a3"
                     /gene_synonym="1200006F02Rik"
                     /note="hexamer: AATACA"
     polyA_site      2558
                     /gene="Slc46a3"
                     /gene_synonym="1200006F02Rik"
     regulatory      3006..3011
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Slc46a3"
                     /gene_synonym="1200006F02Rik"
                     /note="hexamer: TATAAA"
     polyA_site      3029
                     /gene="Slc46a3"
                     /gene_synonym="1200006F02Rik"
ORIGIN      
        1 agagtgatga tgctcggcgg ccgagtcacc actagggccc aaagaccaag agtgcggcgg
       61 cgcggggagc ggcggggact gagtccaggg ccaacagagt ccgggaggtg cgcttatttc
      121 tctttgcctt ctaacagggc tcgagtgtcc cgtcccaagg gacgtccccc tgttgcggtc
      181 tagctccacc tcgctgcccc ttcctttggc tcttcccagc tggcgaaccg tgctgaaaac
      241 ccgggggcgc tacgccccgc actgggtaac ggagaacaca gtcccgacta cggtcccacc
      301 tgtgcctagc ctagcaggaa aactgtaacc gtgggactcg atctgcccac ttgagcaata
      361 tgaagatttc attcatagag cccgccattc tcctgaacgc gtttgctatg actctgacca
      421 tcccgctgac agcgcagtac gtgtaccgga ggatctggga ggaaaccggt aactacacct
      481 ttgcttccaa tagcaatggc tctgagtgtg accaaaacaa aagcagctcc atctttgcat
      541 tccgggagga agttcagaaa aaggcatctc tcttcaacct gcaggtggaa atgagtgcct
      601 taattcctgg tctggtgtct accttcatgc ttttagcgag cagcgacaac cacggacgga
      661 aacttcccat ggtcctgtca tctcttggct ctctgggtac caacacttgg ctgtgcatga
      721 tgtcctactt tgaccttcct ctccagcttc tgatagcatc cacctttatt ggcgccctct
      781 ttgggaatta caccacgttc tggggagctt gcttcgccta cattgtggat cagcagaaag
      841 aatacaagca tagaatcatc cgcatagcca tcctggattt catgcttgga gtcgttactg
      901 ggctaacagg cctgtcatct ggctatttta tccgagaact gggttttgtg tggtcctatt
      961 tcataactgc catggttctt atagtcaacc tggcctacat tttatttttc ctcaatgatc
     1021 ccataaagga gtcttcatct cagattgtga ctatgtcatg tatcgaaagc cttaaggacc
     1081 tattttaccg gacttacatg ctttttaaaa atggttccag taagcggcag gctttgcttt
     1141 gtctgctgat ttttaccctt gtcatttatt tctttgtgat aatcggaatc tccccaattt
     1201 ttacacttta tgagctgggc cctccgctct gctggaatga ggtttacata ggctatggtt
     1261 cagctctggg cagtgtctcc tttttaagta gtttcctagg catctggcta ttttcttatt
     1321 gtttgaagga tattcacatt gcctatattg gcatttttac caccatggtg gggatgacgc
     1381 tggctgcctt caccaggacc actctaatga tgtttttagt caggattccg ttcattttca
     1441 ccatcatgcc actttccgtc ctgaggtcca tgctgtcaaa ggtggtccac tcgactgagc
     1501 aaggtgcgtt gtttgcttgt atagctttct tagaaacgct ggctggggtc acttcgacct
     1561 ctgcgtacag tgggatttac tcagccactg ttgcctggta ccctggcttc atcttcctgc
     1621 tgtccgctgg cctcctggtc ctcccagcca tcagtctatg ctgcgtcaag agcattggct
     1681 gggaagaggg aagctacaca ctcctcgtcc acgaagaacc cagtgagcac acatcagact
     1741 agtgacagtc ggcagcaatg cacacgtccc tatgcagtga gcacacatca gactagtgac
     1801 agtcggcagc aatgcacacg tccctatgca gtgagcacac atcagactag tgacagtcgg
     1861 cagtaatgca catgtcccta tgcagtgagc acacatcaga ctagtgacag tcggcagcaa
     1921 tgcacacgtc cctctgcgca actcctgaag aatataaact ccacaatcgc atttcatcag
     1981 caatccacag gacaaaaccc tgtctcctaa cccaagtgag tcgggaggaa ggcacccagc
     2041 tctgctgctt cttgggacca cccagcagca cactgtgttc tacagagaac aggcccagca
     2101 cctaccatgc tcacttctcc atggaccaga gaaaccccgt gaagagccga ggaaggcttg
     2161 tgaaccttgt taaaacttaa aagcaataac ttcactggca tgctccagtc tcccatgtga
     2221 ttgaggagtt ctgacctcag tctctccgtc tgcacaatgg gcttgctggc ctctcaggga
     2281 ttttgaagac ataatgagga atttttattc agaataatca ctgttgaaat aatgtttcag
     2341 gcatttctag ttcttcccat acttgactga tgttttaaga gcctgttaag gctctactaa
     2401 tggaatgaaa agtccttgaa cagaagtacc ttttaaaata tgtggttttc atttttccta
     2461 gtattttatt cactgacaag cctgacaatg tttttatgtg taatgaaggg agtgagtaga
     2521 acatcagatt ataaatacaa ttgtcttaaa ctttaaaact gagctgacag ctcagtgtgg
     2581 tataaaggca caccttatag cctgtgctca ccctgtggca tggcagaagg ctgtcatagt
     2641 ccacagaccc tggctgggct tctgcctctg atctttcttc ccttcccccc ttctcgggct
     2701 ccacactgta cggagaagga tgtttttaaa acacagatct tatcttttcc agcaactgtt
     2761 gctcataggg gaataagcgg gcaagcatgt gaccccactc cacgttacac acccccatac
     2821 ccatacctag atccatcctt gtcccccaaa tactacctcc tctcctgttt acactttcaa
     2881 ctcgtccctc ctctcgtgtt ttcgtaaaac tgtctcagcc aaaaatccct gctttccctg
     2941 tgtgcccagg gttcttgaca tgtagcctgc ccgccaagtc tcagcagggc ttccacagtc
     3001 ctttgtataa acaagaattc cacccagcat tttccaatgt atttttaaag agatttttaa
     3061 gtgtgcgcct gccctgtctc ctaaaccaag tgtgctctgc gggagctcca cagaggatct
     3121 gtgcaccatt tgcacgcagt gctcatggag gccagaagag ggtgctacac ttcctggaac
     3181 tggagttcca gatggtcgtg agctgcctcg tggggatggg agctggaccc aggtcctctg
     3241 caagaggagc cagtgctcta accactgagc catctctcca gcccaagacc atatttcttt
     3301 ctttcctggt aggtctcctt gaggacaggg acagtctctg ctcattgcat gcttggtaaa
     3361 tgtctgcaga actaaatgtg aaggctacaa tttctttatt ttcatttgca agaactgttt
     3421 aaattccaac cctaatgatt tgtgaagtaa ccgctcctct ccggttccta agctaaacct
     3481 gcaaacagat ggaagtgttg gcccgtgcac cattcaagcc aattcatctt gtttccatcc
     3541 tttgttccca tgcaggtgca tttgtttgta cctgtgtaag acaactgcgg ctgctgatgc
     3601 tcaatcacta cccaccttag cttcttaaga atggttgtcc ttgctctggg gctctgcaag
     3661 gagcctgggc tggctggcca actgggacac accaacacag ctggcttttc agatggtgcc
     3721 tgagggactg gaaacagggc tttctgtttg caaggcaagc actttacctg gctgcctccc
     3781 cgggcccttt accagacttc tccattttca tacgtaatga taaagatgcc gtgacttttc
     3841 tataatctgg gaaaaaccac ttatgtttac aaagctcgtt ccttatcaac gtatggcatt
     3901 gctagtgacc ctgtaaagtg gctcttcatt tcccacgtga caggcgagga aggtgagcct
     3961 caggaactcg aggctggact ctggcctttc tatagtatca gtatatgcag acggactgga
     4021 cacagtggca cagcacttgc ataccagatg ccaggccctg aattagatcc caatacggca
     4081 aagcaacggc aagcatgcac tatactgcct gtcctcacct gaacagccta cagtggctgc
     4141 cattgagact agacaggatg gtcttacagt ggaggggcaa tagacagctt cttggctgag
     4201 cagaaaccta cttgagtggc ctatattttg agggtctcaa ctgctggccc agtgagtgtg
     4261 gctgtctcat gtcctcaaag tttgcgtcac gagagaggaa catgttccag gatgatcgca
     4321 caagcaccat gtcctttctt cttgttctat acacccatct cttcatcatt tcaactcaat
     4381 ggcttagtca cccgtgctca gagtccacaa acagtatctt gtcttgaaac ccagtcagag
     4441 gactttatta cagggtattg cagcaactgc ttcagtttat tttcagctat tgctgttagc
     4501 ctttgacttt gcctaattaa attaagtatc acagacatta tgtcttgaag gaaaaaacct
     4561 agcatgacag agttagatac tacccgcagt ttcagaaatc cattggaggt cccagaacag
     4621 gtctccatgg accaaggggc tgataacaag ggctggctgc cttgtggtca gtgttctaaa
     4681 gagacggctg gatattagaa cccagagatg ccagtgtgtc agggggtagg gagacatggt
     4741 ggttgtgcgg tcatcctgga actattcatg ggtgtataac aggaatattc tcataactta
     4801 aaaacatttc tgtaccttga tacataactt aaaaccaagt gacctgtacc ttccttccac
     4861 agaacactga taagctaaca ggtgagataa aactttgaac cacaatcatt caagcttcat
     4921 gccccggctg ctatacctaa cttctcacat aaaaaaggcc aaactctgca aacttaaa
//
