LOCUS       NM_001006971            1704 bp    mRNA    linear   ROD 24-JUN-2024
DEFINITION  Rattus norvegicus CLN3 lysosomal/endosomal transmembrane protein,
            battenin (Cln3), mRNA.
ACCESSION   NM_001006971 XM_215084
VERSION     NM_001006971.1
KEYWORDS    RefSeq.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (bases 1 to 1704)
  AUTHORS   Studniarczyk,D., Needham,E.L., Mitchison,H.M., Farrant,M. and
            Cull-Candy,S.G.
  TITLE     Altered Cerebellar Short-Term Plasticity but No Change in
            Postsynaptic AMPA-Type Glutamate Receptors in a Mouse Model of
            Juvenile Batten Disease
  JOURNAL   eNeuro 5 (2) (2018)
   PUBMED   29780879
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 1704)
  AUTHORS   Grunewald,B., Lange,M.D., Werner,C., O'Leary,A., Weishaupt,A.,
            Popp,S., Pearce,D.A., Wiendl,H., Reif,A., Pape,H.C., Toyka,K.V.,
            Sommer,C. and Geis,C.
  TITLE     Defective synaptic transmission causes disease signs in a mouse
            model of juvenile neuronal ceroid lipofuscinosis
  JOURNAL   Elife 6, e28685 (2017)
   PUBMED   29135436
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 1704)
  AUTHORS   Hersrud,S.L., Kovacs,A.D. and Pearce,D.A.
  TITLE     Antigen presenting cell abnormalities in the Cln3(-/-) mouse model
            of juvenile neuronal ceroid lipofuscinosis
  JOURNAL   Biochim Biophys Acta 1862 (7), 1324-1336 (2016)
   PUBMED   27101989
REFERENCE   4  (bases 1 to 1704)
  AUTHORS   Wavre-Shapton,S.T., Calvi,A.A., Turmaine,M., Seabra,M.C.,
            Cutler,D.F., Futter,C.E. and Mitchison,H.M.
  TITLE     Photoreceptor phagosome processing defects and disturbed autophagy
            in retinal pigment epithelium of Cln3Deltaex1-6 mice modelling
            juvenile neuronal ceroid lipofuscinosis (Batten disease)
  JOURNAL   Hum Mol Genet 24 (24), 7060-7074 (2015)
   PUBMED   26450516
REFERENCE   5  (bases 1 to 1704)
  AUTHORS   Chandrachud,U., Walker,M.W., Simas,A.M., Heetveld,S.,
            Petcherski,A., Klein,M., Oh,H., Wolf,P., Zhao,W.N., Norton,S.,
            Haggarty,S.J., Lloyd-Evans,E. and Cotman,S.L.
  TITLE     Unbiased Cell-based Screening in a Neuronal Cell Model of Batten
            Disease Highlights an Interaction between Ca2+ Homeostasis,
            Autophagy, and CLN3 Protein Function
  JOURNAL   J Biol Chem 290 (23), 14361-14380 (2015)
   PUBMED   25878248
REFERENCE   6  (bases 1 to 1704)
  AUTHORS   Margraf,L.R., Boriack,R.L., Routheut,A.A., Cuppen,I., Alhilali,L.,
            Bennett,C.J. and Bennett,M.J.
  TITLE     Tissue expression and subcellular localization of CLN3, the Batten
            disease protein
  JOURNAL   Mol Genet Metab 66 (4), 283-289 (1999)
   PUBMED   10191116
REFERENCE   7  (bases 1 to 1704)
  AUTHORS   Kaczmarski,W., Wisniewski,K.E., Golabek,A., Kaczmarski,A., Kida,E.
            and Michalewski,M.
  TITLE     Studies of membrane association of CLN3 protein
  JOURNAL   Mol Genet Metab 66 (4), 261-264 (1999)
   PUBMED   10191112
REFERENCE   8  (bases 1 to 1704)
  AUTHORS   Haskell,R.E., Derksen,T.A. and Davidson,B.L.
  TITLE     Intracellular trafficking of the JNCL protein CLN3
  JOURNAL   Mol Genet Metab 66 (4), 253-260 (1999)
   PUBMED   10191111
REFERENCE   9  (bases 1 to 1704)
  AUTHORS   Kremmidiotis,G., Lensink,I.L., Bilton,R.L., Woollatt,E.,
            Chataway,T.K., Sutherland,G.R. and Callen,D.F.
  TITLE     The Batten disease gene product (CLN3p) is a Golgi integral
            membrane protein
  JOURNAL   Hum Mol Genet 8 (3), 523-531 (1999)
   PUBMED   9949212
REFERENCE   10 (bases 1 to 1704)
  AUTHORS   Jarvela,I., Sainio,M., Rantamaki,T., Olkkonen,V.M., Carpen,O.,
            Peltonen,L. and Jalanko,A.
  TITLE     Biosynthesis and intracellular targeting of the CLN3 protein
            defective in Batten disease
  JOURNAL   Hum Mol Genet 7 (1), 85-90 (1998)
   PUBMED   9384607
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from BC083704.1.
            
            On Nov 22, 2004 this sequence version replaced XM_215084.2.
            
            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 :: BC083704.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMD00132261,
                                           SAMD00132262 [ECO:0006172]
            ##Evidence-Data-END##
FEATURES             Location/Qualifiers
     source          1..1704
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /db_xref="taxon:10116"
                     /chromosome="1"
                     /map="1q36"
     gene            1..1704
                     /gene="Cln3"
                     /note="CLN3 lysosomal/endosomal transmembrane protein,
                     battenin"
                     /db_xref="GeneID:293485"
                     /db_xref="RGD:1359537"
     exon            1..17
                     /gene="Cln3"
                     /inference="alignment:Splign:2.1.0"
     exon            18..202
                     /gene="Cln3"
                     /inference="alignment:Splign:2.1.0"
     CDS             157..1473
                     /gene="Cln3"
                     /note="ceroid lipofuscinosis, neuronal 3, juvenile
                     (Batten, Spielmeyer-Vogt disease); Cln3p;
                     ceroid-lipofuscinosis, neuronal 3; CLN3, battenin"
                     /codon_start=1
                     /product="battenin"
                     /protein_id="NP_001006972.1"
                     /db_xref="GeneID:293485"
                     /db_xref="RGD:1359537"
                     /translation="MGSSESSWRRLEDSEREETDSEPQTPPLDNLSVLWKNAVGFWIL
                     GLCNNFSYVVMLSAAHDILKQEQASGNQSHVEPGPTPMPHNSSSRFDCNSISTAAVLL
                     ADILPTLVIKLLAPLGLHLLPYSPRVLVSGVCSAGSFVLVAFSQSVGLSLCGVVLASI
                     SSGLGEVTFLSLTAFYPSAVISWWSSGTGGAGLLGSLSYLGLTQAGLSPQHTLLSMLG
                     IPVLMLASYFLLLTSPEPLDPGGQDEAETAARQPLIGTETPESRPGTSWDLSLQERWT
                     VFKGLLRYIIPLVLVYFAEYFINQGLFELLFFRNTSLSHAQQYRWYQMLYQAGVFASR
                     SSLQCCRIRFTWILALLQCLNLAFLLADVCLTFLPSIYLIFIVILYEGLLGGAAYVNT
                     FHNIALETSDKHREFAMEAACISDTLGISLSGVLALPLHDFLCHLP"
     exon            203..281
                     /gene="Cln3"
                     /inference="alignment:Splign:2.1.0"
     exon            282..378
                     /gene="Cln3"
                     /inference="alignment:Splign:2.1.0"
     exon            379..450
                     /gene="Cln3"
                     /inference="alignment:Splign:2.1.0"
     exon            451..530
                     /gene="Cln3"
                     /inference="alignment:Splign:2.1.0"
     exon            531..616
                     /gene="Cln3"
                     /inference="alignment:Splign:2.1.0"
     exon            617..689
                     /gene="Cln3"
                     /inference="alignment:Splign:2.1.0"
     exon            690..833
                     /gene="Cln3"
                     /inference="alignment:Splign:2.1.0"
     exon            834..946
                     /gene="Cln3"
                     /inference="alignment:Splign:2.1.0"
     exon            947..993
                     /gene="Cln3"
                     /inference="alignment:Splign:2.1.0"
     exon            994..1062
                     /gene="Cln3"
                     /inference="alignment:Splign:2.1.0"
     exon            1063..1118
                     /gene="Cln3"
                     /inference="alignment:Splign:2.1.0"
     exon            1119..1212
                     /gene="Cln3"
                     /inference="alignment:Splign:2.1.0"
     exon            1213..1353
                     /gene="Cln3"
                     /inference="alignment:Splign:2.1.0"
     exon            1354..1675
                     /gene="Cln3"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 ctctgctgct cttaaagtag tgtacagcag accgcggaac ctgtgactga ccacggggcg
       61 ttgatcccac ctgtcccaga ctttcatctg ttttcttgac gctaactcct aacacacgct
      121 gactttaggt cctttggggg acccgaactc aatgtcatgg gaagctctga gagctcgtgg
      181 aggcgccttg aggattctga gagggaggag accgactcag agccccaaac ccctccgttg
      241 gataatctaa gtgtcctttg gaagaatgcg gtgggcttct ggatcttggg gctttgcaac
      301 aacttctcat atgtggtgat gctgagcgct gcccatgaca tccttaagca ggagcaggca
      361 tctggaaacc agagccatgt ggaaccaggc ccaacaccca tgccccataa cagctcatct
      421 cgatttgatt gcaattcaat ctccacagct gcggtgctcc tagcagacat ccttcccacc
      481 cttgtcatca aactcctggc tcctcttggc cttcatttgc tgccttacag cccccgggtg
      541 cttgtcagtg gagtctgttc tgctggaagc tttgttctgg ttgccttttc tcaatcagtg
      601 gggttaagcc tgtgtggagt ggttttggcc agcatctcat caggtctagg ggaggtcacc
      661 ttcctttcac tgactgcctt ctaccccagt gctgtgatct catggtggtc ttcaggaact
      721 gggggtgcag ggcttcttgg atcgctgtca tacctggggc tcacccaggc tggcctctcc
      781 ccgcagcaca ccctactttc tatgctgggg atccctgttc tgatgctagc cagctatttc
      841 ttgctgctca catctcctga acccctggac cctggagggc aagacgaggc agagactgct
      901 gcccggcagc ctctcatagg caccgagacc ccagagtcta ggccaggtac cagctgggac
      961 ctctctctcc aggaaaggtg gacagtgttc aagggcctct tgcgatacat catccctctg
     1021 gtgctggtct actttgcaga atactttatc aaccaggggc tttttgagct cctgtttttc
     1081 cggaacacat ccttaagtca tgctcagcag taccgatggt accagatgct ataccaggct
     1141 ggtgtgttcg cttcccgctc ttctctccag tgttgccgaa tccggttcac ctggatccta
     1201 gccctgctcc agtgcctcaa cctggccttc ctgctggcag atgtatgctt gaccttcctg
     1261 cccagcatct acctcatctt catcgtcatt ctgtatgaag ggcttctggg cggggccgct
     1321 tacgtgaata ccttccacaa cattgccctg gagaccagtg acaagcaccg agagtttgcc
     1381 atggaagctg cctgcatttc tgacaccttg ggaatctccc tgtcaggggt cctggccttg
     1441 cctctgcatg acttcctctg ccacctcccc tgatatgagt tgctcagcac acactggcct
     1501 aaaggcacag tgagctctgc cacaggcctt ccctgagact caggagtggg aagatctaca
     1561 gtcctgccct acctcagcag ggagccccca ttgtttccca ctcccgagct ggcctcagag
     1621 agtttttttt cccccacccc ctgcccttct aataaatgct tattttacca gtttaaaaaa
     1681 aaaaaaaaaa aaaaaaaaaa aaaa
//
