LOCUS       NM_053674               1201 bp    mRNA    linear   ROD 30-MAR-2024
DEFINITION  Rattus norvegicus phytanoyl-CoA 2-hydroxylase (Phyh), mRNA.
ACCESSION   NM_053674
VERSION     NM_053674.2
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 1201)
  AUTHORS   Yao,X., Xia,F., Tang,W., Xiao,C., Yang,M. and Zhou,B.
  TITLE     Isobaric tags for relative and absolute quantitation (iTRAQ)-based
            proteomics for the investigation of the effect of Hugan Qingzhi on
            non-alcoholic fatty liver disease in rats
  JOURNAL   J Ethnopharmacol 212, 208-215 (2018)
   PUBMED   29031784
REFERENCE   2  (bases 1 to 1201)
  AUTHORS   Aylward,A., Cai,Y., Lee,A., Blue,E., Rabinowitz,D. and Haddad,J.
            Jr.
  CONSRTM   University of Washington Center for Mendelian Genomics
  TITLE     Using Whole Exome Sequencing to Identify Candidate Genes With Rare
            Variants In Nonsyndromic Cleft Lip and Palate
  JOURNAL   Genet Epidemiol 40 (5), 432-441 (2016)
   PUBMED   27229527
REFERENCE   3  (bases 1 to 1201)
  AUTHORS   Ferdinandusse,S., Zomer,A.W., Komen,J.C., van den Brink,C.E.,
            Thanos,M., Hamers,F.P., Wanders,R.J., van der Saag,P.T.,
            Poll-The,B.T. and Brites,P.
  TITLE     Ataxia with loss of Purkinje cells in a mouse model for Refsum
            disease
  JOURNAL   Proc Natl Acad Sci U S A 105 (46), 17712-17717 (2008)
   PUBMED   19004801
REFERENCE   4  (bases 1 to 1201)
  AUTHORS   McDonough,M.A., Kavanagh,K.L., Butler,D., Searls,T., Oppermann,U.
            and Schofield,C.J.
  TITLE     Structure of human phytanoyl-CoA 2-hydroxylase identifies molecular
            mechanisms of Refsum disease
  JOURNAL   J Biol Chem 280 (49), 41101-41110 (2005)
   PUBMED   16186124
REFERENCE   5  (bases 1 to 1201)
  AUTHORS   Kikuchi,M., Hatano,N., Yokota,S., Shimozawa,N., Imanaka,T. and
            Taniguchi,H.
  TITLE     Proteomic analysis of rat liver peroxisome: presence of
            peroxisome-specific isozyme of Lon protease
  JOURNAL   J Biol Chem 279 (1), 421-428 (2004)
   PUBMED   14561759
REFERENCE   6  (bases 1 to 1201)
  AUTHORS   Jansen,G.A., Ofman,R., Ferdinandusse,S., Ijlst,L., Muijsers,A.O.,
            Skjeldal,O.H., Stokke,O., Jakobs,C., Besley,G.T., Wraith,J.E. and
            Wanders,R.J.
  TITLE     Refsum disease is caused by mutations in the phytanoyl-CoA
            hydroxylase gene
  JOURNAL   Nat Genet 17 (2), 190-193 (1997)
   PUBMED   9326940
REFERENCE   7  (bases 1 to 1201)
  AUTHORS   Mihalik,S.J., Morrell,J.C., Kim,D., Sacksteder,K.A., Watkins,P.A.
            and Gould,S.J.
  TITLE     Identification of PAHX, a Refsum disease gene
  JOURNAL   Nat Genet 17 (2), 185-189 (1997)
   PUBMED   9326939
REFERENCE   8  (bases 1 to 1201)
  AUTHORS   Jansen,G.A., Mihalik,S.J., Watkins,P.A., Moser,H.W., Jakobs,C.,
            Heijmans,H.S. and Wanders,R.J.
  TITLE     Phytanoyl-CoA hydroxylase is not only deficient in classical Refsum
            disease but also in rhizomelic chondrodysplasia punctata
  JOURNAL   J Inherit Metab Dis 20 (3), 444-446 (1997)
   PUBMED   9266377
REFERENCE   9  (bases 1 to 1201)
  AUTHORS   Jansen,G.A., Mihalik,S.J., Watkins,P.A., Moser,H.W., Jakobs,C.,
            Denis,S. and Wanders,R.J.
  TITLE     Phytanoyl-CoA hydroxylase is present in human liver, located in
            peroxisomes, and deficient in Zellweger syndrome: direct,
            unequivocal evidence for the new, revised pathway of phytanic acid
            alpha-oxidation in humans
  JOURNAL   Biochem Biophys Res Commun 229 (1), 205-210 (1996)
   PUBMED   8954107
REFERENCE   10 (bases 1 to 1201)
  AUTHORS   Skjeldal,O.H. and Stokke,O.
  TITLE     The subcellular localization of phytanic acid oxidase in rat liver
  JOURNAL   Biochim Biophys Acta 921 (1), 38-42 (1987)
   PUBMED   3620488
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from
            JAXUCZ010000017.1.
            
            On Nov 26, 2020 this sequence version replaced NM_053674.1.
            
            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 :: AF121345.1, BC086573.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA5760386,
                                           SAMEA5760400 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-85                JAXUCZ010000017.1  78255561-78255645   c
            86-144              JAXUCZ010000017.1  78252247-78252305   c
            145-255             JAXUCZ010000017.1  78249919-78250029   c
            256-424             JAXUCZ010000017.1  78248009-78248177   c
            425-506             JAXUCZ010000017.1  78247118-78247199   c
            507-688             JAXUCZ010000017.1  78245007-78245188   c
            689-838             JAXUCZ010000017.1  78241262-78241411   c
            839-973             JAXUCZ010000017.1  78239470-78239604   c
            974-1201            JAXUCZ010000017.1  78238747-78238974   c
FEATURES             Location/Qualifiers
     source          1..1201
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="17"
                     /map="17q12.3"
     gene            1..1201
                     /gene="Phyh"
                     /note="phytanoyl-CoA 2-hydroxylase"
                     /db_xref="GeneID:114209"
                     /db_xref="RGD:620317"
     exon            1..85
                     /gene="Phyh"
                     /inference="alignment:Splign:2.1.0"
     CDS             11..1027
                     /gene="Phyh"
                     /EC_number="1.14.11.18"
                     /note="phytanoyl-CoA dioxygenase, peroxisomal; phytanic
                     acid oxidase; phytanoyl-CoA alpha-hydroxylase;
                     phytanoyl-CoA hydroxylase (Refsum disease)"
                     /codon_start=1
                     /product="phytanoyl-CoA dioxygenase, peroxisomal
                     precursor"
                     /protein_id="NP_446126.1"
                     /db_xref="GeneID:114209"
                     /db_xref="RGD:620317"
                     /translation="MDYTRAGARLQVLLGHLGRPSALQIVAHPVSGPASPANFCPEQF
                     QYTLDNNVLSLEQRKFYEENGFLVIKNLVSDDDIQRFRAEFERICRKEVKPPGMTVMK
                     DVAIAKQGYAPSERVVTKIQDFQQNEELFRYCALPQIVKYVECFTGPNIMAMHTMLIN
                     KPPDSGKKTSRHPLHQDLHFFPFRPSNLIVCAWTAMEHIDRNNGCLVVLPGTHKGPLK
                     PHDYPKWEGGVNKMYHGIQDYDPDSPRVHLVMEKGDTVFFHPLLIHGSGRNRTQGFRK
                     AISCHYGSSDCKYISVKGTSQENIAREVIEIAEKRYGVQGALDFEDTWKFRCRLVKGE
                     RINL"
     exon            86..144
                     /gene="Phyh"
                     /inference="alignment:Splign:2.1.0"
     exon            145..255
                     /gene="Phyh"
                     /inference="alignment:Splign:2.1.0"
     exon            256..424
                     /gene="Phyh"
                     /inference="alignment:Splign:2.1.0"
     exon            425..506
                     /gene="Phyh"
                     /inference="alignment:Splign:2.1.0"
     exon            507..688
                     /gene="Phyh"
                     /inference="alignment:Splign:2.1.0"
     exon            689..838
                     /gene="Phyh"
                     /inference="alignment:Splign:2.1.0"
     exon            839..973
                     /gene="Phyh"
                     /inference="alignment:Splign:2.1.0"
     exon            974..1201
                     /gene="Phyh"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 ggcccccacc atggactata cgcgcgctgg tgcccggctg caggtccttc tgggacacct
       61 tggccgaccc tcggcccttc agattgtagc ccaccccgta tcagggccgg cttcccctgc
      121 caatttctgt cctgaacaat tccagtatac tttggacaat aatgtcctca gcctggagca
      181 gagaaaattt tatgaagaaa acgggtttct cgtcattaaa aatctggtat cggatgatga
      241 tattcaacgg tttcgagcag agtttgaaag aatctgcaga aaggaggtga aaccaccagg
      301 gatgactgta atgaaagacg tggccattgc gaagcagggt tatgcgccaa gtgagagggt
      361 ggttacgaag atccaggatt tccaacaaaa tgaggagctc ttcagatact gtgccctgcc
      421 ccagattgtg aaatacgtgg agtgcttcac tggacccaat attatggcta tgcacacaat
      481 gctgatcaac aagcctccgg attctggcaa gaagacatcc cggcatccct tgcatcagga
      541 tctgcacttt ttccccttcc gacccagcaa cctaattgtt tgtgcttgga cagccatgga
      601 gcacatcgac aggaacaatg gctgtcttgt tgtgctccct ggtacccaca aaggtcccct
      661 gaagccacat gattacccca agtgggaggg aggagttaac aaaatgtacc atggcatcca
      721 agactatgac ccagacagcc cccgcgtcca cttggtgatg gaaaagggcg acacagtttt
      781 cttccatccc ctgctcatcc atggatctgg tcggaacaga actcaaggat tcaggaaagc
      841 aatctcctgc cactatggca gctccgactg caaatatatc agcgtgaagg gcaccagtca
      901 agaaaacatt gcgagggaag ttattgagat tgcggagaaa cgttatggag tccaaggagc
      961 cctggacttt gaggacactt ggaagtttcg atgccgactt gtgaaaggag aaagaataaa
     1021 cctttgaaag agcccttcag ggctggagag gtggctcagc ggttaagagc actgattgct
     1081 cttccggagg tcctgagttc aaatcccagc aaccacatga tggctcacaa ccatctgtaa
     1141 tgggatctgg tgccctcttc tggtgtgtct gaagatagct acagtgtact catataaata
     1201 a
//
