LOCUS       NM_001399140            1818 bp    mRNA    linear   ROD 27-MAR-2024
DEFINITION  Rattus norvegicus UBX domain protein 6 (Ubxn6), transcript variant
            1, mRNA.
ACCESSION   NM_001399140 XM_039083940
VERSION     NM_001399140.1
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 1818)
  AUTHORS   Papadopoulos,C., Kirchner,P., Bug,M., Grum,D., Koerver,L.,
            Schulze,N., Poehler,R., Dressler,A., Fengler,S., Arhzaouy,K.,
            Lux,V., Ehrmann,M., Weihl,C.C. and Meyer,H.
  TITLE     VCP/p97 cooperates with YOD1, UBXD1 and PLAA to drive clearance of
            ruptured lysosomes by autophagy
  JOURNAL   EMBO J 36 (2), 135-150 (2017)
   PUBMED   27753622
REFERENCE   2  (bases 1 to 1818)
  AUTHORS   Trusch,F., Matena,A., Vuk,M., Koerver,L., Knaevelsrud,H.,
            Freemont,P.S., Meyer,H. and Bayer,P.
  TITLE     The N-terminal Region of the Ubiquitin Regulatory X (UBX)
            Domain-containing Protein 1 (UBXD1) Modulates Interdomain
            Communication within the Valosin-containing Protein p97
  JOURNAL   J Biol Chem 290 (49), 29414-29427 (2015)
   PUBMED   26475856
REFERENCE   3  (bases 1 to 1818)
  AUTHORS   Ritz,D., Vuk,M., Kirchner,P., Bug,M., Schutz,S., Hayer,A.,
            Bremer,S., Lusk,C., Baloh,R.H., Lee,H., Glatter,T., Gstaiger,M.,
            Aebersold,R., Weihl,C.C. and Meyer,H.
  TITLE     Endolysosomal sorting of ubiquitylated caveolin-1 is regulated by
            VCP and UBXD1 and impaired by VCP disease mutations
  JOURNAL   Nat Cell Biol 13 (9), 1116-1123 (2011)
   PUBMED   21822278
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 1818)
  AUTHORS   Nagahama,M., Ohnishi,M., Kawate,Y., Matsui,T., Miyake,H., Yuasa,K.,
            Tani,K., Tagaya,M. and Tsuji,A.
  TITLE     UBXD1 is a VCP-interacting protein that is involved in
            ER-associated degradation
  JOURNAL   Biochem Biophys Res Commun 382 (2), 303-308 (2009)
   PUBMED   19275885
REFERENCE   5  (bases 1 to 1818)
  AUTHORS   Gonzales,P.A., Pisitkun,T., Hoffert,J.D., Tchapyjnikov,D.,
            Star,R.A., Kleta,R., Wang,N.S. and Knepper,M.A.
  TITLE     Large-scale proteomics and phosphoproteomics of urinary exosomes
  JOURNAL   J Am Soc Nephrol 20 (2), 363-379 (2009)
   PUBMED   19056867
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000009.1.
            
            On Jan 4, 2022 this sequence version replaced XM_039083940.1.
            
            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 :: SRR26643288.36401.1,
                                           SRR26643293.48502.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA5760383,
                                           SAMEA5760389 [ECO:0006172]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-188               JAXUCZ010000009.1  992967-993154       c
            189-352             JAXUCZ010000009.1  991585-991748       c
            353-417             JAXUCZ010000009.1  991245-991309       c
            418-546             JAXUCZ010000009.1  990953-991081       c
            547-683             JAXUCZ010000009.1  990532-990668       c
            684-759             JAXUCZ010000009.1  990296-990371       c
            760-844             JAXUCZ010000009.1  989516-989600       c
            845-1061            JAXUCZ010000009.1  989221-989437       c
            1062-1192           JAXUCZ010000009.1  989016-989146       c
            1193-1341           JAXUCZ010000009.1  988792-988940       c
            1342-1818           JAXUCZ010000009.1  988051-988527       c
FEATURES             Location/Qualifiers
     source          1..1818
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="9"
                     /map="9q11"
     gene            1..1818
                     /gene="Ubxn6"
                     /gene_synonym="Ubxd1"
                     /note="UBX domain protein 6"
                     /db_xref="GeneID:363332"
                     /db_xref="RGD:1590866"
     exon            1..188
                     /gene="Ubxn6"
                     /gene_synonym="Ubxd1"
                     /inference="alignment:Splign:2.1.0"
     CDS             106..1470
                     /gene="Ubxn6"
                     /gene_synonym="Ubxd1"
                     /note="isoform 1 is encoded by transcript variant 1; UBX
                     domain containing 1; UBX domain-containing protein 6"
                     /codon_start=1
                     /product="UBX domain-containing protein 6 isoform 1"
                     /protein_id="NP_001386069.1"
                     /db_xref="GeneID:363332"
                     /db_xref="RGD:1590866"
                     /translation="MKKFFQEIKADIKFKSAGPGQKLTDSAGEKTSKGKSPQLALRQP
                     RQGPTDEAQMAAAAALARLEQKQPRARGPTSQDSIRNQVRKELQAEATSSNNPGAPGT
                     NSVPETKDEISPHLAVPGVFFICPLTGVTLRRDQRDAHIKQAILSQFYGVLSMPLLPQ
                     HFSTDPVAASIMKIHTFNRDRDRVKLGVDTIAKYLDNIHLHPEEEKYQKIKLQNKVFQ
                     ERINCLEGSHEFFEAIGFKKVTLPVPDQEGQEFYVLGEDARAQPQNLERHKQQLLGAE
                     PVRATLDRQLRVFRPSALASHFELPSDFFSLTAEEVKREQRLRTEAVERLSSLRTKAM
                     REKEEQRELRKYTYALLRVRLPDGCLLQGTFYAREKLSVLFQFVREALQNDWLPFELR
                     ASGGQKLEENEALALNECGLVPSALLTFSWDASVLEDIRAAGAEPAKSVLRPELLAAI
                     EQLS"
     exon            189..352
                     /gene="Ubxn6"
                     /gene_synonym="Ubxd1"
                     /inference="alignment:Splign:2.1.0"
     exon            353..417
                     /gene="Ubxn6"
                     /gene_synonym="Ubxd1"
                     /inference="alignment:Splign:2.1.0"
     exon            418..546
                     /gene="Ubxn6"
                     /gene_synonym="Ubxd1"
                     /inference="alignment:Splign:2.1.0"
     exon            547..683
                     /gene="Ubxn6"
                     /gene_synonym="Ubxd1"
                     /inference="alignment:Splign:2.1.0"
     exon            684..759
                     /gene="Ubxn6"
                     /gene_synonym="Ubxd1"
                     /inference="alignment:Splign:2.1.0"
     exon            760..844
                     /gene="Ubxn6"
                     /gene_synonym="Ubxd1"
                     /inference="alignment:Splign:2.1.0"
     exon            845..1061
                     /gene="Ubxn6"
                     /gene_synonym="Ubxd1"
                     /inference="alignment:Splign:2.1.0"
     exon            1062..1192
                     /gene="Ubxn6"
                     /gene_synonym="Ubxd1"
                     /inference="alignment:Splign:2.1.0"
     exon            1193..1341
                     /gene="Ubxn6"
                     /gene_synonym="Ubxd1"
                     /inference="alignment:Splign:2.1.0"
     exon            1342..1818
                     /gene="Ubxn6"
                     /gene_synonym="Ubxd1"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 acttccgtcg ccgagatatt ttctttccgg tggttggccg cctgctcctc acccacccgg
       61 gccctgcgcc ctccgccccg cggcccacgc cgccgggccg ccgccatgaa gaagttcttc
      121 caggagatca aggctgacat caagttcaaa agcgcggggc ccggccagaa gcttacggac
      181 tccgcagggg agaagacctc caaaggaaag tcaccacagc tggccctccg gcagccccgt
      241 cagggcccca ctgatgaggc acagatggct gccgctgctg ccctggcccg gctggaacag
      301 aagcaacccc gagcccgggg ccctacatct caggactcca ttcggaacca ggtgagaaag
      361 gaacttcagg ccgaagccac ctccagcaac aatccaggag ctcctgggac caactcggta
      421 cctgagacca aagatgaaat ctctccccat ttggcagtgc ctggtgtgtt cttcatctgt
      481 ccgctcacag gtgtcaccct gaggagggac cagcgggatg cccacatcaa gcaggccatc
      541 ctgtcacagt tttatggggt cctcagcatg cctcttctcc cccagcactt ttccacagac
      601 cctgtggctg cctccatcat gaagatacat acattcaata gagaccggga tcgagtgaag
      661 ctgggtgtgg ataccatcgc caagtacctg gacaatatcc atttgcatcc agaggaagaa
      721 aagtaccaga aaatcaaact gcagaacaag gtgttccagg aacgaatcaa ctgcctcgag
      781 ggaagccacg agttctttga agccattggc ttcaagaagg tgaccctacc tgtgccagat
      841 caagagggtc aggagttcta cgtcctgggt gaggatgcgc gggcgcagcc gcagaacttg
      901 gagcggcaca agcagcaact gttgggcgca gagcctgtgc gggccactct ggatcggcag
      961 ctccgagtct tccgcccctc agccctggcc tcacattttg agctcccctc agatttcttt
     1021 agcctcacag ctgaggaggt gaagcgtgag caaaggctca gaacagaagc ggtagaacgg
     1081 ctgagttcac tcaggaccaa agccatgcga gagaaggagg agcagcggga gctgcgcaag
     1141 tatacctatg cccttctgcg tgtgcgcctg ccggatggct gtctactgca agggaccttc
     1201 tatgcccggg agaagctatc tgtgctcttc cagtttgtgc gagaggcgct acagaacgac
     1261 tggctgccct ttgaactgag ggcctcgggt gggcagaagc tggaggagaa cgaggccctg
     1321 gccctgaatg aatgcgggct ggtaccctct gccctgctga ccttctcctg ggatgcttca
     1381 gtgttggagg atataagggc agcaggagct gagccagcaa aatctgtctt gaggcctgag
     1441 ctgcttgcag ccattgagca actctcctga ataaatgcag tcttggccca ttgtggctcc
     1501 agtttcatgc tgttcccaaa cccgttcctt tccctttgag cccccagcaa taggagaggc
     1561 actagtagta gggtttggaa caagatccca tctcgggagc tgagttctct gtgggctgca
     1621 agggaaaggc ttgtacttgc ctgaggtatg tggagccttg tgccatcttg gagtgcatta
     1681 caggtgggat ggacacctct gtgcagaata ggtgtatagt acgggcatga gtctcacagg
     1741 tgtggataga ggtggccagc aggatggagc tataattcct aagttataca ccctaaataa
     1801 accggctatt taaactca
//
