LOCUS       NM_001393917            4282 bp    mRNA    linear   ROD 31-MAR-2024
DEFINITION  Rattus norvegicus lebercilin LCA5 (Lca5), transcript variant 1,
            mRNA.
ACCESSION   NM_001393917 XM_008766250
VERSION     NM_001393917.1
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 4282)
  AUTHORS   Karlstetter,M., Sorusch,N., Caramoy,A., Dannhausen,K.,
            Aslanidis,A., Fauser,S., Boesl,M.R., Nagel-Wolfrum,K., Tamm,E.R.,
            Jagle,H., Stoehr,H., Wolfrum,U. and Langmann,T.
  TITLE     Disruption of the retinitis pigmentosa 28 gene Fam161a in mice
            affects photoreceptor ciliary structure and leads to progressive
            retinal degeneration
  JOURNAL   Hum Mol Genet 23 (19), 5197-5210 (2014)
   PUBMED   24833722
REFERENCE   2  (bases 1 to 4282)
  AUTHORS   Boldt,K., Mans,D.A., Won,J., van Reeuwijk,J., Vogt,A., Kinkl,N.,
            Letteboer,S.J., Hicks,W.L., Hurd,R.E., Naggert,J.K., Texier,Y., den
            Hollander,A.I., Koenekoop,R.K., Bennett,J., Cremers,F.P.,
            Gloeckner,C.J., Nishina,P.M., Roepman,R. and Ueffing,M.
  TITLE     Disruption of intraflagellar protein transport in photoreceptor
            cilia causes Leber congenital amaurosis in humans and mice
  JOURNAL   J Clin Invest 121 (6), 2169-2180 (2011)
   PUBMED   21606596
REFERENCE   3  (bases 1 to 4282)
  AUTHORS   Coene,K.L., Roepman,R., Doherty,D., Afroze,B., Kroes,H.Y.,
            Letteboer,S.J., Ngu,L.H., Budny,B., van Wijk,E., Gorden,N.T.,
            Azhimi,M., Thauvin-Robinet,C., Veltman,J.A., Boink,M.,
            Kleefstra,T., Cremers,F.P., van Bokhoven,H. and de Brouwer,A.P.
  TITLE     OFD1 is mutated in X-linked Joubert syndrome and interacts with
            LCA5-encoded lebercilin
  JOURNAL   Am J Hum Genet 85 (4), 465-481 (2009)
   PUBMED   19800048
  REMARK    GeneRIF: mutated OFD1 interacts with LCA5-encoded lebercilin
REFERENCE   4  (bases 1 to 4282)
  AUTHORS   den Hollander,A.I., Koenekoop,R.K., Mohamed,M.D., Arts,H.H.,
            Boldt,K., Towns,K.V., Sedmak,T., Beer,M., Nagel-Wolfrum,K.,
            McKibbin,M., Dharmaraj,S., Lopez,I., Ivings,L., Williams,G.A.,
            Springell,K., Woods,C.G., Jafri,H., Rashid,Y., Strom,T.M., van der
            Zwaag,B., Gosens,I., Kersten,F.F., van Wijk,E., Veltman,J.A.,
            Zonneveld,M.N., van Beersum,S.E., Maumenee,I.H., Wolfrum,U.,
            Cheetham,M.E., Ueffing,M., Cremers,F.P., Inglehearn,C.F. and
            Roepman,R.
  TITLE     Mutations in LCA5, encoding the ciliary protein lebercilin, cause
            Leber congenital amaurosis
  JOURNAL   Nat Genet 39 (7), 889-895 (2007)
   PUBMED   17546029
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000008.1.
            
            On Mar 22, 2021 this sequence version replaced XM_008766250.3.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR26360176.1259318.1,
                                           SRR26360190.204110.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA5760383,
                                           SAMEA5760386 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-88                JAXUCZ010000008.1  93246327-93246414   c
            89-457              JAXUCZ010000008.1  93232872-93233240   c
            458-987             JAXUCZ010000008.1  93229323-93229852   c
            988-1125            JAXUCZ010000008.1  93208781-93208918   c
            1126-1219           JAXUCZ010000008.1  93207815-93207908   c
            1220-1362           JAXUCZ010000008.1  93206843-93206985   c
            1363-1492           JAXUCZ010000008.1  93205786-93205915   c
            1493-4282           JAXUCZ010000008.1  93200950-93203739   c
FEATURES             Location/Qualifiers
     source          1..4282
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="8"
                     /map="8q31"
     gene            1..4282
                     /gene="Lca5"
                     /gene_synonym="RGD1308555"
                     /note="lebercilin LCA5"
                     /db_xref="GeneID:300866"
                     /db_xref="RGD:1308555"
     exon            1..88
                     /gene="Lca5"
                     /gene_synonym="RGD1308555"
                     /inference="alignment:Splign:2.1.0"
     exon            89..457
                     /gene="Lca5"
                     /gene_synonym="RGD1308555"
                     /inference="alignment:Splign:2.1.0"
     CDS             256..2439
                     /gene="Lca5"
                     /gene_synonym="RGD1308555"
                     /note="leber congenital amaurosis 5 protein homolog; LCA5,
                     lebercilin"
                     /codon_start=1
                     /product="lebercilin"
                     /protein_id="NP_001380846.1"
                     /db_xref="GeneID:300866"
                     /db_xref="RGD:1308555"
                     /translation="MGERDQSSDTDQERKGGKHPYSSHYSSDFGSSPQSSGPSSPVNT
                     PPCASNREKNPKRHLSDHHVRHQTVRKVSPKAIPNKKGVRVGFRSQSLNREPLRKDPD
                     IVTKRVLSARLLKITELQNEVSELQVKLAQLLKENKALKSLQYRQEKALSKFEDAENE
                     ISQLIHRHNGEITALKERLRKSQEKERMAEKRVKDTEGELFRTKFSLQKLKKISEARH
                     LPERDDLAKKLVSAELKLDNTERKIKELSKNLELSTNSFQRQLLAERKRAFEAHDENK
                     ILQKELQRLHHKLKEKEKELDIKNIYANRLPKSSPKKEKEIARKHASCQSDFTDLCTK
                     AVQTAEDFEPEEFPFTAQTVLCYENRWDGSEYLPSYLEYQERNEHGSESLSSTLEQEG
                     KYSDDQDSCTAKQETGKSECEWEREELDKVKGKSSLLGRTEKLVLEAGSVQTESYQAQ
                     TIDKFQDEAERLKTEMLLAKLNEINKELQDPQSLSRPLLPLLPNFESKLYSPDRSLRP
                     YTFSESLDRSFNGQHLSDMSFLTPRDEGQSPGLIRSPAPSDEFSFGSYVPSFGKTPGK
                     SNPPSQKNSLLDFQSNMSEGLSKDSLDFISRKEKKATLMEQLFGTSASASATNTSAST
                     TTNTTTNTNTNTNTNTNTNCNVPSKSIDSHFPAASRGDLDPLHFLSGDRSSRVREPDG
                     EDEDLFLSEGRSFNPNRHRLKHTSTKPTVTAVDSIDEDIEEVTLR"
     exon            458..987
                     /gene="Lca5"
                     /gene_synonym="RGD1308555"
                     /inference="alignment:Splign:2.1.0"
     exon            988..1125
                     /gene="Lca5"
                     /gene_synonym="RGD1308555"
                     /inference="alignment:Splign:2.1.0"
     exon            1126..1219
                     /gene="Lca5"
                     /gene_synonym="RGD1308555"
                     /inference="alignment:Splign:2.1.0"
     exon            1220..1362
                     /gene="Lca5"
                     /gene_synonym="RGD1308555"
                     /inference="alignment:Splign:2.1.0"
     exon            1363..1492
                     /gene="Lca5"
                     /gene_synonym="RGD1308555"
                     /inference="alignment:Splign:2.1.0"
     exon            1493..4282
                     /gene="Lca5"
                     /gene_synonym="RGD1308555"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 cggtcctccc gcggtgcaag ctgggcctcc gctccgttgc ccgggagccg aagccgccga
       61 gccgccgccc gcagccgtgg tccctacaca aatgaagtgt atcttgtgtt tactggtgtg
      121 gactacagac atactgtgaa gaaaacaaac tgcacataaa taattattac caggacaccg
      181 aggctgcaaa aacattcttc agtacttcca cgaatctgta aaacgatgtg actagagagg
      241 tcgtttttcc aaacaatggg ggaaagggac caaagttcag atactgatca agaaagaaaa
      301 ggaggcaaac acccttactc gtcccattac tcgtctgact tcgggtcctc accacagtct
      361 tctggcccct cgtcacctgt caacacgcca ccatgtgcca gtaataggga gaagaatccc
      421 aaaagacacc tgtcagacca ccacgtgcgc caccaaaccg ttaggaaagt gagtcctaag
      481 gctataccca acaaaaaggg ggtccgagtg ggatttcggt cccaaagcct caacagagag
      541 ccacttcgga aagatccaga tatcgtaaca aagagggttc tttctgcaag acttctgaaa
      601 atcaccgagc tgcagaatga agtgtctgaa ctacaggtca agttagccca gctgctcaaa
      661 gaaaacaagg ctttgaaaag tctgcagtat cgtcaggaga aagcactgag taagttcgaa
      721 gatgcagaga atgaaatctc acaacttata caccgccata acggtgagat tactgcgctc
      781 aaagaacgct taagaaaatc tcaggagaaa gagcggatgg cagagaaaag agtgaaagac
      841 acagaagggg aactatttag gacgaaattt tccctacaga aactaaaaaa gatctctgag
      901 gccagacacc taccggagcg agacgatttg gccaagaaac tagtttcagc agagttaaaa
      961 ttagacaaca ccgagagaaa gattaaggaa ctatcgaaga acctggagct aagcaccaac
     1021 agcttccagc ggcagctgct tgctgaaagg aaaagagcgt ttgaggctca cgatgaaaat
     1081 aaaattctcc aaaaggagct gcagcggctc caccacaagc tgaaggagaa ggagaaagaa
     1141 ttggatataa aaaacatcta cgctaatcgc ctgcccaagt cctctccaaa gaaagagaaa
     1201 gaaattgcaa gaaagcatgc atcctgccag agcgacttta cggacctgtg tacaaaagca
     1261 gtacagaccg ctgaagactt tgagccggaa gagtttcctt tcacagcaca gacagtcctt
     1321 tgttatgaaa acagatggga cgggtcagaa tatcttcctt cgtacctgga ataccaggag
     1381 cgaaatgagc atgggtcaga gagtctaagc tcaactttgg aacaagaagg aaagtacagc
     1441 gacgaccagg attcatgtac tgcaaagcag gagaccggga agtctgaatg tgaatgggaa
     1501 agagaagagc ttgataaggt gaaaggcaag tcatctttgc tagggagaac agagaagctg
     1561 gtgttagaag ctggaagtgt ccaaacggaa agttatcaag ctcaaacgat tgataaattc
     1621 caagacgagg cggaaagact aaagacagaa atgcttcttg ccaaactgaa cgaaatcaac
     1681 aaagaactcc aagatcccca gagcctcagc cgaccccttt tgccgttgct acccaacttc
     1741 gaatccaagc tgtactctcc agacagaagc ctcagacctt acacgttctc ggagtcctta
     1801 gacagatcat ttaatggaca acatttgtca gacatgagtt ttttaactcc cagggacgaa
     1861 ggccagagtc caggactgat cagaagtcca gctccttcag atgagttctc attcggtagc
     1921 tacgtgcctt cgtttggaaa aacaccagga aagtcaaatc cacctagcca aaaaaatagc
     1981 cttttagatt tccaaagcaa catgtctgag ggcctgagta aagacagtct agatttcatt
     2041 tcaaggaaag agaaaaaggc aaccctgatg gagcagctgt tcggcaccag cgccagcgcc
     2101 agcgccacca acaccagcgc cagcaccacc accaacacca ccaccaacac caacaccaac
     2161 accaacacca acaccaacac caactgcaat gtcccctcca agagcattga ctcacatttc
     2221 cctgctgcca gcagaggtga cttggaccct cttcatttcc tctccgggga cagaagcagc
     2281 agagtccggg agcctgatgg tgaagatgaa gaccttttcc tcagcgaagg aagaagtttt
     2341 aatccaaata gacaccggtt gaagcacacg agcactaagc caacagtcac ggccgttgac
     2401 tctattgacg aggacattga agaggttacc ctcagatgac tgactggagc acacagagta
     2461 tatatatttt ttcaattgta aatattaaag tattttaata cagtatttat tataaacatt
     2521 taaactttca atggtaaagt agacttagta gggagtaact tttagtggct aacgatggca
     2581 taatcaaaca ggtagtactg ttcctcaaag ccgcattgta agaatgcttt tttgtttcga
     2641 aatgaaccct aaggagagtt gttgctgact gttcctctgt tgttacggct aggtctcact
     2701 gagttagcac tgtgggaagt tttacttcag taaatctcat ttcttttccc tctcattttg
     2761 atccaacctc agtgagccca agcactgttt ttcccactga tggctaagtg gaaatggagg
     2821 gtctccggta ggattaaaga cctcagtggc agacagcagt gggatgtagg agctgtgccc
     2881 ttgtctgagg tgacagagcc aagccactct tgagtggtgg tgacagtaat gttgggactt
     2941 cattttcttg gaaaaccatc cctggggact tgagggtgtt tagaggagtg tgcactgggc
     3001 ggtgactcct caggagtaat tgatactcct cagttgcagg cccggagtca ctcagtgctg
     3061 ccttgctggc cgcgtgcgtg gatacggtag agcacaggag acatggctgc cttaatggcc
     3121 ttcctttctg tggctgcagg aggcttgggc acaagctcaa ggctgtcctt cctctcctct
     3181 tctgtacact ctaaattctg gtgacaggtg aaagattccc taccaaatac gggcagtaga
     3241 agaaatgcca gcccaacaca atgattttca actcaattat gtttccagag tgttatgttt
     3301 ggaaattttc atacatattt ttaatatttg aacttgtgct caaactcagg agacagcagt
     3361 gcgatactcg tgagtttgtg atgttgacac aacttcacca agaagttttt agacgtgggg
     3421 ctcctgtctt tctgagtaga tgcgatagct ttctgttgaa aggcaaggtc cttccactca
     3481 gtccaggata gctgaggggc atttgctgac ttggtctggc ctgttggagc agtaatgtat
     3541 cagccaagga gaagcattgc gtggaacgcg ggtgacctgt ggaacgcggg tgacctgtgg
     3601 aacgcgggtg acctgtggaa cgcgggtgac ctgtggaacg cgggtgacct gagcagtgtg
     3661 tccatttgtt cacatctcat gcaaggctta gggaaggcgt tcccatgttg tctgggttct
     3721 tctgctgtta cttggtaaga ccttccctgg tcagtcctaa ttcacggctg tactgctgtc
     3781 ttccccctgg attgggttct tgtcattttg ggggaacaaa ctctccttaa agtgctaaat
     3841 aatatttaaa atttttctca ggagaggact ttatgaataa gcatttacta tattgcaaat
     3901 cattgtaata tatgtaagca tgttatttgt gacacagttc ttgataaagc attatgtaat
     3961 gttaattttg ttcatggata tggtttttct ttttttacaa aagtattcta attttaaggg
     4021 tttttaaaat gtttttgtcc agaaaaattt ttattcacta ctttcattat atttatgcct
     4081 tttctacttg aaagtctatt taacccagtg aaacaaagaa ttattaaaat taaattaagt
     4141 taaaaactta aaggcattat gatgtttagt attaaaattt gatattaaaa tgtacagaac
     4201 ttagagagca aatcagtttt ttctaaatgt caagttaaat tatttgtact cagaactctt
     4261 actaataaaa agttaaaaca ca
//
