LOCUS       NM_001191689            2549 bp    mRNA    linear   ROD 29-MAR-2024
DEFINITION  Rattus norvegicus CLN5, intracellular trafficking protein (Cln5),
            mRNA.
ACCESSION   NM_001191689 XM_224477
VERSION     NM_001191689.1
KEYWORDS    RefSeq; RefSeq Select.
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 2549)
  AUTHORS   Danyukova,T., Ariunbat,K., Thelen,M., Brocke-Ahmadinejad,N.,
            Mole,S.E. and Storch,S.
  TITLE     Loss of CLN7 results in depletion of soluble lysosomal proteins and
            impaired mTOR reactivation
  JOURNAL   Hum Mol Genet 27 (10), 1711-1722 (2018)
   PUBMED   29514215
REFERENCE   2  (bases 1 to 2549)
  AUTHORS   Mamo,A., Jules,F., Dumaresq-Doiron,K., Costantino,S. and
            Lefrancois,S.
  TITLE     The role of ceroid lipofuscinosis neuronal protein 5 (CLN5) in
            endosomal sorting
  JOURNAL   Mol Cell Biol 32 (10), 1855-1866 (2012)
   PUBMED   22431521
REFERENCE   3  (bases 1 to 2549)
  AUTHORS   Schmiedt,M.L., Bessa,C., Heine,C., Ribeiro,M.G., Jalanko,A. and
            Kyttala,A.
  TITLE     The neuronal ceroid lipofuscinosis protein CLN5: new insights into
            cellular maturation, transport, and consequences of mutations
  JOURNAL   Hum Mutat 31 (3), 356-365 (2010)
   PUBMED   20052765
REFERENCE   4  (bases 1 to 2549)
  AUTHORS   Lyly,A., von Schantz,C., Heine,C., Schmiedt,M.L., Sipila,T.,
            Jalanko,A. and Kyttala,A.
  TITLE     Novel interactions of CLN5 support molecular networking between
            Neuronal Ceroid Lipofuscinosis proteins
  JOURNAL   BMC Cell Biol 10, 83 (2009)
   PUBMED   19941651
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 2549)
  AUTHORS   Sleat,D.E., Zheng,H., Qian,M. and Lobel,P.
  TITLE     Identification of sites of mannose 6-phosphorylation on lysosomal
            proteins
  JOURNAL   Mol Cell Proteomics 5 (4), 686-701 (2006)
   PUBMED   16399764
REFERENCE   6  (bases 1 to 2549)
  AUTHORS   Holmberg,V., Jalanko,A., Isosomppi,J., Fabritius,A.L., Peltonen,L.
            and Kopra,O.
  TITLE     The mouse ortholog of the neuronal ceroid lipofuscinosis CLN5 gene
            encodes a soluble lysosomal glycoprotein expressed in the
            developing brain
  JOURNAL   Neurobiol Dis 16 (1), 29-40 (2004)
   PUBMED   15207259
REFERENCE   7  (bases 1 to 2549)
  AUTHORS   Vesa,J., Chin,M.H., Oelgeschlager,K., Isosomppi,J.,
            DellAngelica,E.C., Jalanko,A. and Peltonen,L.
  TITLE     Neuronal ceroid lipofuscinoses are connected at molecular level:
            interaction of CLN5 protein with CLN2 and CLN3
  JOURNAL   Mol Biol Cell 13 (7), 2410-2420 (2002)
   PUBMED   12134079
REFERENCE   8  (bases 1 to 2549)
  AUTHORS   Isosomppi,J., Vesa,J., Jalanko,A. and Peltonen,L.
  TITLE     Lysosomal localization of the neuronal ceroid lipofuscinosis CLN5
            protein
  JOURNAL   Hum Mol Genet 11 (8), 885-891 (2002)
   PUBMED   11971870
REFERENCE   9  (bases 1 to 2549)
  AUTHORS   Holopainen,J.M., Saarikoski,J., Kinnunen,P.K. and Jarvela,I.
  TITLE     Elevated lysosomal pH in neuronal ceroid lipofuscinoses (NCLs)
  JOURNAL   Eur J Biochem 268 (22), 5851-5856 (2001)
   PUBMED   11722572
REFERENCE   10 (bases 1 to 2549)
  AUTHORS   Heinonen,O., Salonen,T., Jalanko,A., Peltonen,L. and Copp,A.
  TITLE     CLN-1 and CLN-5, genes for infantile and variant late infantile
            neuronal ceroid lipofuscinoses, are expressed in the embryonic
            human brain
  JOURNAL   J Comp Neurol 426 (3), 406-412 (2000)
   PUBMED   10992246
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from
            JAXUCZ010000015.1.
            
            On Jul 17, 2010 this sequence version replaced XM_224477.5.
            
            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.
            
            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 :: SRR26643299.57592.1,
                                           SRR26643295.51543.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA5760383, SAMEA5760386
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on expression
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-122               JAXUCZ010000015.1  86308434-86308555
            123-288             JAXUCZ010000015.1  86311003-86311168
            289-514             JAXUCZ010000015.1  86312644-86312869
            515-2549            JAXUCZ010000015.1  86316113-86318147
FEATURES             Location/Qualifiers
     source          1..2549
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="15"
                     /map="15q21"
     gene            1..2549
                     /gene="Cln5"
                     /note="CLN5, intracellular trafficking protein"
                     /db_xref="GeneID:306128"
                     /db_xref="RGD:1306965"
     CDS             1..1026
                     /gene="Cln5"
                     /note="ceroid-lipofuscinosis neuronal protein 5;
                     ceroid-lipofuscinosis, neuronal 5"
                     /codon_start=1
                     /product="ceroid-lipofuscinosis neuronal protein 5
                     precursor"
                     /protein_id="NP_001178618.1"
                     /db_xref="GeneID:306128"
                     /db_xref="RGD:1306965"
                     /translation="MPRVGPGGAHWRPALALALLGLAATLGASPTSGQRWPVPYKRFS
                     FRPKTDPFCQAKYTFCPTGSPIPVMKDNDVIEVLRLQAPVWEFKYGDLLGHFKIMHDA
                     IGFRSTLTGKNYTVEWYELFQLGNCTFPHLRPEVNAPFWCNQGAACFFEGIYDKHWKE
                     NGTLSLVATVSGNTFNKVAEWVKQDNETGIYYETWTVRASPGKGAQTWFESYDCSNFV
                     LRTYEKLAEFGTDFKKIETNYTKIFLYSGEPIYLGNETSIFGPKGNKTLALAIKKFYG
                     PFKRYSSTKDFLLNFLKIFDTVIMHREFYLFYNFEYWFLPMKPPFVKITYEETPLPTQ
                     HTTFTDL"
     exon            1..122
                     /gene="Cln5"
                     /inference="alignment:Splign:2.1.0"
     exon            123..288
                     /gene="Cln5"
                     /inference="alignment:Splign:2.1.0"
     exon            289..514
                     /gene="Cln5"
                     /inference="alignment:Splign:2.1.0"
     exon            515..2549
                     /gene="Cln5"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 atgccgcgcg tggggccagg cggagcgcac tggcgcccgg cgctcgcgct ggcgctgctg
       61 gggctggcgg ccactctggg cgcgtccccg acgtctgggc aacgctggcc cgtaccctac
      121 aagcgcttct ccttccgtcc gaagacagat cccttctgtc aagccaagta tactttctgc
      181 cctactggct cacccatccc agttatgaag gacaatgacg tcatcgaagt cttaaggcta
      241 caagcccctg tttgggaatt taaatatgga gacctcctgg gacacttcaa aatcatgcac
      301 gatgccattg gattcaggag tacgctgacg ggcaagaact acacagttga atggtatgag
      361 cttttccagc tcggcaactg tacatttccc caccttcggc ccgaagtgaa cgctccgttc
      421 tggtgtaacc agggggcagc ctgcttcttt gaaggaattt acgataaaca ctggaaggaa
      481 aacgggacgt tgtcgctggt tgcaaccgta tccggaaaca cgtttaacaa agtggccgag
      541 tgggtgaagc aggacaatga gactgggatt tattacgaga catggacagt ccgggccagc
      601 ccaggaaaag gggcgcagac atggtttgaa tcctacgact gttcaaattt tgtcttaagg
      661 acatatgaga aattggctga atttggaaca gatttcaaga agatagaaac aaactatacg
      721 aaaatatttc tttacagcgg agaaccgatt tacttgggaa atgaaacgtc tatttttggg
      781 cccaaaggaa acaagaccct tgctttggcc ataaaaaaat tttacggccc cttcaaacgg
      841 tattcgtcaa ccaaagattt tctgttgaat ttcttgaaaa tttttgacac agtgattatg
      901 cacagagagt tctacctgtt ttataacttt gagtattggt ttctacctat gaaacccccc
      961 tttgtcaaaa taacgtacga ggaaacccct ttacctaccc aacatacgac atttaccgac
     1021 ctgtgacagc ctccctctgc tgctgctact ctccatccac cagcatccat attctcccgg
     1081 ggctgtgcct acactggtgt ctttggtcac cttcacctcc tggggcgcct tgtcggaagt
     1141 acagtatatg tcaagactcc cggaaagaag cagaaacctt aattgtattg gccaaagtga
     1201 atgggttgca attactcgat ctcagccatg gagattcttt gatcccaagg ttaacatgtt
     1261 ttctcgggcc accttttctg ttacagtagt gatatttctt agtttgggtt acttttttgt
     1321 ttgtttgggt ttttttgtct ctaaagaata gttgttttta tagttattac agccctgggg
     1381 gtccaggtga actgctttct agtcacataa ccttaaagcc tcgtttggac gccattactg
     1441 gagcctgtct aatgccccct aatagcattc ctctagacat ggcaaagaca gtagagctgt
     1501 tgtgacaggg gccacctaac atctctagat gtatgtcctt gcctctaaaa tgactcacct
     1561 accaggtaca tgaagattgg gggcacctat gtaggcatgg ggggacatac tgagtgcata
     1621 tatggcctct cttgggacca aaagcacccc gacagactac acatggcttc agttcttcag
     1681 tacaagccgt ggacgtgtct gcctccagac acagctaggt gaagtgttct gacttcccgt
     1741 gtgtgtcctc tggtttttct cccgccatca tcacagagag tacacccttc tgcaaagggt
     1801 ggaatttcgt cagggaccct tgtcagctca ctacgctgcc gttagaggca ttagacaggc
     1861 tctcggggcc tgtattttga tcagttgaac tccggttggt tcggtttgtt tccctattta
     1921 acactagcac aataatcaaa gtctttaaat atagacatta ttgtattatt attattatta
     1981 ttattattat tattagacat attattaggt gccagttttt aattgccgcc taacagctga
     2041 ctgcttcttg agaggttagt acacgactgc tgagctgtct taagaagcct caagtgtgta
     2101 agtcagggct tagcaagata aaatgacctg gcattgtgtt ttcactcagg gtgcactggg
     2161 tgcctttcag ccctcttcag attgtggcct tataccggta tctatgcacc gaatgtcacc
     2221 agcctgtgtt gtttctattc agtctaatta aaaaacaaac aaaacaaaaa gccctcaaga
     2281 aaaaaagggg gggggtgctt ggactttgtg tctttgatct tatttgtcta ggaatttact
     2341 ttttattgtt taaaccccac aaagccaagg tgaccccaga tgactggata gtcacgaagt
     2401 gcactgttct gcctaccctg gagaagtaga cttgtcctca tacacagagg gaccgtcttc
     2461 cgctgcctcc cctttaccaa cccaacgatg ttgcctcttt gacctcgttt tcaggatgag
     2521 gttaagaatc ttcacattac tactatcta
//
