LOCUS       NM_019975               2618 bp    mRNA    linear   ROD 30-APR-2024
DEFINITION  Mus musculus 2-hydroxyacyl-CoA lyase 1 (Hacl1), mRNA.
ACCESSION   NM_019975
VERSION     NM_019975.3
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Mus musculus (house mouse)
  ORGANISM  Mus musculus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Mus; Mus.
REFERENCE   1  (bases 1 to 2618)
  AUTHORS   Adams,D.J., Barlas,B., McIntyre,R.E., Salguero,I., van der
            Weyden,L., Barros,A., Vicente,J.R., Karimpour,N., Haider,A.,
            Ranzani,M., Turner,G., Thompson,N.A., Harle,V., Olvera-Leon,R.,
            Robles-Espinoza,C.D., Speak,A.O., Geisler,N., Weninger,W.J.,
            Geyer,S.H., Hewinson,J., Karp,N.A., Fu,B., Yang,F., Kozik,Z.,
            Choudhary,J., Yu,L., van Ruiten,M.S., Rowland,B.D., Lelliott,C.J.,
            Del Castillo Velasco-Herrera,M., Verstraten,R., Bruckner,L.,
            Henssen,A.G., Rooimans,M.A., de Lange,J., Mohun,T.J., Arends,M.J.,
            Kentistou,K.A., Coelho,P.A., Zhao,Y., Zecchini,H., Perry,J.R.B.,
            Jackson,S.P. and Balmus,G.
  CONSRTM   Sanger Mouse Genetics Project
  TITLE     Genetic determinants of micronucleus formation in vivo
  JOURNAL   Nature 627 (8002), 130-136 (2024)
   PUBMED   38355793
REFERENCE   2  (bases 1 to 2618)
  AUTHORS   Khalil,Y., Carrino,S., Lin,F., Ferlin,A., Lad,H.V., Mazzacuva,F.,
            Falcone,S., Rivers,N., Banks,G., Concas,D., Aguilar,C.,
            Haynes,A.R., Blease,A., Nicol,T., Al-Shawi,R., Heywood,W.,
            Potter,P., Mills,K., Gale,D.P. and Clayton,P.T.
  TITLE     Tissue Proteome of 2-Hydroxyacyl-CoA Lyase Deficient Mice Reveals
            Peroxisome Proliferation and Activation of omega-Oxidation
  JOURNAL   Int J Mol Sci 23 (2), 987 (2022)
   PUBMED   35055171
  REMARK    GeneRIF: Tissue Proteome of 2-Hydroxyacyl-CoA Lyase Deficient Mice
            Reveals Peroxisome Proliferation and Activation of omega-Oxidation.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 2618)
  AUTHORS   Ingham,N.J., Pearson,S.A., Vancollie,V.E., Rook,V., Lewis,M.A.,
            Chen,J., Buniello,A., Martelletti,E., Preite,L., Lam,C.C.,
            Weiss,F.D., Powis,Z., Suwannarat,P., Lelliott,C.J., Dawson,S.J.,
            White,J.K. and Steel,K.P.
  TITLE     Mouse screen reveals multiple new genes underlying mouse and human
            hearing loss
  JOURNAL   PLoS Biol 17 (4), e3000194 (2019)
   PUBMED   30973865
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 2618)
  AUTHORS   Jenkins,B., de Schryver,E., Van Veldhoven,P.P. and Koulman,A.
  TITLE     Peroxisomal 2-Hydroxyacyl-CoA Lyase Is Involved in Endogenous
            Biosynthesis of Heptadecanoic Acid
  JOURNAL   Molecules 22 (10), 1718 (2017)
   PUBMED   29027957
  REMARK    GeneRIF: Hacl1 plays a significant role in the liver and plasma
            levels of C17:0, providing evidence it can be endogenously
            biosynthesized via alpha-oxidation
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 2618)
  AUTHORS   Mezzar,S., De Schryver,E., Asselberghs,S., Meyhi,E., Morvay,P.L.,
            Baes,M. and Van Veldhoven,P.P.
  TITLE     Phytol-induced pathology in 2-hydroxyacyl-CoA lyase (HACL1)
            deficient mice. Evidence for a second non-HACL1-related lyase
  JOURNAL   Biochim Biophys Acta Mol Cell Biol Lipids 1862 (9), 972-990 (2017)
   PUBMED   28629946
REFERENCE   6  (bases 1 to 2618)
  AUTHORS   Koscielny,G., Yaikhom,G., Iyer,V., Meehan,T.F., Morgan,H.,
            Atienza-Herrero,J., Blake,A., Chen,C.K., Easty,R., Di Fenza,A.,
            Fiegel,T., Grifiths,M., Horne,A., Karp,N.A., Kurbatova,N.,
            Mason,J.C., Matthews,P., Oakley,D.J., Qazi,A., Regnart,J.,
            Retha,A., Santos,L.A., Sneddon,D.J., Warren,J., Westerberg,H.,
            Wilson,R.J., Melvin,D.G., Smedley,D., Brown,S.D., Flicek,P.,
            Skarnes,W.C., Mallon,A.M. and Parkinson,H.
  TITLE     The International Mouse Phenotyping Consortium Web Portal, a
            unified point of access for knockout mice and related phenotyping
            data
  JOURNAL   Nucleic Acids Res 42 (Database issue), D802-D809 (2014)
   PUBMED   24194600
REFERENCE   7  (bases 1 to 2618)
  AUTHORS   Lee,J., Xu,Y., Chen,Y., Sprung,R., Kim,S.C., Xie,S. and Zhao,Y.
  TITLE     Mitochondrial phosphoproteome revealed by an improved IMAC method
            and MS/MS/MS
  JOURNAL   Mol Cell Proteomics 6 (4), 669-676 (2007)
   PUBMED   17208939
REFERENCE   8  (bases 1 to 2618)
  AUTHORS   Foulon,V., Sniekers,M., Huysmans,E., Asselberghs,S., Mahieu,V.,
            Mannaerts,G.P., Van Veldhoven,P.P. and Casteels,M.
  TITLE     Breakdown of 2-hydroxylated straight chain fatty acids via
            peroxisomal 2-hydroxyphytanoyl-CoA lyase: a revised pathway for the
            alpha-oxidation of straight chain fatty acids
  JOURNAL   J Biol Chem 280 (11), 9802-9812 (2005)
   PUBMED   15644336
  REMARK    GeneRIF: 2-hydroxyphytanoyl-CoA lyase has a role in the breakdown
            of long chain 2-hydroxyfatty acids
REFERENCE   9  (bases 1 to 2618)
  AUTHORS   Stryke,D., Kawamoto,M., Huang,C.C., Johns,S.J., King,L.A.,
            Harper,C.A., Meng,E.C., Lee,R.E., Yee,A., L'Italien,L.,
            Chuang,P.T., Young,S.G., Skarnes,W.C., Babbitt,P.C. and Ferrin,T.E.
  TITLE     BayGenomics: a resource of insertional mutations in mouse embryonic
            stem cells
  JOURNAL   Nucleic Acids Res 31 (1), 278-281 (2003)
   PUBMED   12520002
REFERENCE   10 (bases 1 to 2618)
  AUTHORS   Huyghe,S., Casteels,M., Janssen,A., Meulders,L., Mannaerts,G.P.,
            Declercq,P.E., Van Veldhoven,P.P. and Baes,M.
  TITLE     Prenatal and postnatal development of peroxisomal
            lipid-metabolizing pathways in the mouse
  JOURNAL   Biochem J 353 (Pt 3), 673-680 (2001)
   PUBMED   11171065
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            BY340097.1 and AK041686.1.
            
            On Dec 9, 2009 this sequence version replaced NM_019975.2.
            
            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 :: AK041686.1, AJ132139.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849386, SAMN01164135
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-4                 BY340097.1         1-4
            5-2490              AK041686.1         1-2486
            2491-2618           AK041686.1         2488-2615
FEATURES             Location/Qualifiers
     source          1..2618
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="14"
                     /map="14 19.23 cM"
     gene            1..2618
                     /gene="Hacl1"
                     /gene_synonym="1600020H07Rik; Hpcl; Phyh2"
                     /note="2-hydroxyacyl-CoA lyase 1"
                     /db_xref="GeneID:56794"
                     /db_xref="MGI:MGI:1929657"
     exon            1..177
                     /gene="Hacl1"
                     /gene_synonym="1600020H07Rik; Hpcl; Phyh2"
                     /inference="alignment:Splign:2.1.0"
     CDS             88..1833
                     /gene="Hacl1"
                     /gene_synonym="1600020H07Rik; Hpcl; Phyh2"
                     /EC_number="4.1.2.63"
                     /note="2-HPCL; phytanoyl-CoA 2-hydroxylase 2;
                     2-hydroxyphytanoyl-CoA lyase"
                     /codon_start=1
                     /product="2-hydroxyacyl-CoA lyase 1"
                     /protein_id="NP_064359.2"
                     /db_xref="CCDS:CCDS26915.1"
                     /db_xref="GeneID:56794"
                     /db_xref="MGI:MGI:1929657"
                     /translation="MPESNSAEGSDRSEEQVSGAKVIAQALKTQDVEYMFGVVGIPVT
                     EIALAAQELGIKYIGMRNEQAACYAASAVGYLTGRPGVCLVVSGPGLIHALGGMANAN
                     MNCWPLIVIGGSSERNQEAMGAFQEFPQVEACRLYTKFSARPSTIELIPFIIEKAVRS
                     SIYGRPGACYIDIPADFVTLQANVTSIKYKECCMPPPVSMAETSAVCAAASVLRDAKQ
                     PLLIIGKGAAYSHAEDSIRKLVEQCSLPFLPTPMGKGVVPDNHPNCVGAARSRALQSA
                     DVIVLFGARLNWILHFGLPPRYQADVKFIQIDICAEELGNNVRPSVILLGDIDAVSKQ
                     LLEQFDKTPWQCPPDSQWWKTLREKMKSNEAISKELASQKSLPMNYYTVFYHVQEQLP
                     RDSFIVSEGANTMDIGRTMLQNCLPRHRLDAGSFGTMGVGLGFAIAAALVAKDRSPGQ
                     RVICVEGDSAFGFSGMEVETICRYNLPIILLVVNNNGIYQGFDADTWEKMLHFQEAAT
                     TVPPMCLLPNSHYEQVMTAFGGKGYFVRTPEELQHSLRQALQDTSKPCLLNIMIEPQS
                     TRKAQDFHWLTRSNM"
     exon            178..282
                     /gene="Hacl1"
                     /gene_synonym="1600020H07Rik; Hpcl; Phyh2"
                     /inference="alignment:Splign:2.1.0"
     exon            283..323
                     /gene="Hacl1"
                     /gene_synonym="1600020H07Rik; Hpcl; Phyh2"
                     /inference="alignment:Splign:2.1.0"
     exon            324..404
                     /gene="Hacl1"
                     /gene_synonym="1600020H07Rik; Hpcl; Phyh2"
                     /inference="alignment:Splign:2.1.0"
     exon            405..477
                     /gene="Hacl1"
                     /gene_synonym="1600020H07Rik; Hpcl; Phyh2"
                     /inference="alignment:Splign:2.1.0"
     exon            478..555
                     /gene="Hacl1"
                     /gene_synonym="1600020H07Rik; Hpcl; Phyh2"
                     /inference="alignment:Splign:2.1.0"
     exon            556..650
                     /gene="Hacl1"
                     /gene_synonym="1600020H07Rik; Hpcl; Phyh2"
                     /inference="alignment:Splign:2.1.0"
     exon            651..763
                     /gene="Hacl1"
                     /gene_synonym="1600020H07Rik; Hpcl; Phyh2"
                     /inference="alignment:Splign:2.1.0"
     exon            764..899
                     /gene="Hacl1"
                     /gene_synonym="1600020H07Rik; Hpcl; Phyh2"
                     /inference="alignment:Splign:2.1.0"
     exon            900..1005
                     /gene="Hacl1"
                     /gene_synonym="1600020H07Rik; Hpcl; Phyh2"
                     /inference="alignment:Splign:2.1.0"
     exon            1006..1089
                     /gene="Hacl1"
                     /gene_synonym="1600020H07Rik; Hpcl; Phyh2"
                     /inference="alignment:Splign:2.1.0"
     exon            1090..1191
                     /gene="Hacl1"
                     /gene_synonym="1600020H07Rik; Hpcl; Phyh2"
                     /inference="alignment:Splign:2.1.0"
     exon            1192..1346
                     /gene="Hacl1"
                     /gene_synonym="1600020H07Rik; Hpcl; Phyh2"
                     /inference="alignment:Splign:2.1.0"
     exon            1347..1505
                     /gene="Hacl1"
                     /gene_synonym="1600020H07Rik; Hpcl; Phyh2"
                     /inference="alignment:Splign:2.1.0"
     exon            1506..1613
                     /gene="Hacl1"
                     /gene_synonym="1600020H07Rik; Hpcl; Phyh2"
                     /inference="alignment:Splign:2.1.0"
     exon            1614..1800
                     /gene="Hacl1"
                     /gene_synonym="1600020H07Rik; Hpcl; Phyh2"
                     /inference="alignment:Splign:2.1.0"
     exon            1801..2618
                     /gene="Hacl1"
                     /gene_synonym="1600020H07Rik; Hpcl; Phyh2"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1955..1960
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Hacl1"
                     /gene_synonym="1600020H07Rik; Hpcl; Phyh2"
                     /note="hexamer: AGTAAA"
     regulatory      1968..1973
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Hacl1"
                     /gene_synonym="1600020H07Rik; Hpcl; Phyh2"
                     /note="hexamer: ACTAAA"
     polyA_site      1977
                     /gene="Hacl1"
                     /gene_synonym="1600020H07Rik; Hpcl; Phyh2"
                     /note="major polyA site"
     polyA_site      1991
                     /gene="Hacl1"
                     /gene_synonym="1600020H07Rik; Hpcl; Phyh2"
                     /note="major polyA site"
ORIGIN      
        1 tgtcagaagc gggtgtcacc aacaacaact cttaggctag tgaagctgtg agctgcgaga
       61 gtgccttgaa gtaactttag gtggaagatg ccagaaagta actccgcaga gggtagcgac
      121 agaagcgagg agcaggtgtc tggtgctaaa gtcatcgccc aggctctaaa aactcaagat
      181 gtggagtaca tgttcggtgt cgtaggcatc cccgtgaccg aaatcgccct tgctgcccag
      241 gaactgggca tcaagtacat tgggatgcgg aatgagcaag cggcttgtta tgctgcctct
      301 gcagttggat acctgacagg caggccagga gtgtgccttg ttgtttctgg tcccggtctc
      361 atccacgcct tgggcggcat ggcaaatgca aacatgaact gttggccctt gattgtgatt
      421 ggtggttctt ctgaaagaaa tcaagaagct atgggagcct tccaggagtt tccacaggtt
      481 gaagcttgca gattgtatac caagttctcg gcccggccaa gcaccataga gctcattccg
      541 tttattattg aaaaggcagt gaggagcagt atctatggtc gcccgggagc ttgttacatt
      601 gacattcctg cagattttgt gaccctccag gcgaacgtga cttctataaa atacaaggag
      661 tgctgcatgc cacctccagt tagcatggca gaaacctctg ctgtgtgcgc agcagcctct
      721 gttcttcggg atgccaagca acccctgctt atcatcggga aaggcgctgc ctattcccac
      781 gcagaggaca gcatcaggaa gctggtggag cagtgcagtt tgccattttt gcctacgcct
      841 atggggaagg gggttgtccc tgacaatcat cccaactgtg taggcgcggc cagatccagg
      901 gctttgcagt ccgctgacgt gattgtgtta tttggtgcga gactaaactg gatcttacat
      961 tttggactgc ctccaagata ccaggcagac gtgaagttta ttcagattga tatctgtgca
     1021 gaagaactgg ggaataatgt caggccttct gtgattttgc taggagatat agatgctgtc
     1081 tctaaacagc ttttagaaca gtttgataaa actccgtggc agtgcccccc agacagccag
     1141 tggtggaaga ctctgaggga gaaaatgaag agcaatgaag ccatctccaa ggaactggct
     1201 tcccaaaagt ccctccctat gaattattac acagtgttct accacgttca agaacagttg
     1261 ccccgagact ctttcatagt gagtgagggg gcaaacacca tggacatcgg acggactatg
     1321 cttcagaact gccttcctcg ccacaggctt gatgcaggtt cttttggaac aatgggggtt
     1381 ggcctgggat ttgccattgc agccgctcta gtggctaaag acagaagtcc tgggcagcgg
     1441 gtcatctgtg tggaaggtga cagtgccttc ggattttctg gcatggaagt ggagaccatc
     1501 tgcaggtaca acttgccaat catactcttg gtagtaaaca ataatggaat ttaccaaggt
     1561 tttgacgctg acacctggga aaaaatgcta cattttcaag aagctgctac aactgtccct
     1621 ccaatgtgcc tcttgccaaa ctcgcattat gagcaggtca tgactgcatt tggaggcaaa
     1681 gggtattttg tacgaacacc agaagagctc caacactcgc tgaggcaggc tctgcaagac
     1741 acaagtaaac cctgccttct caacattatg attgagccac aaagtacgcg caaggcccag
     1801 gattttcact ggctcacccg ttctaacatg tgaataaact acttgatggt tatgaggaat
     1861 tttctctttc ccgcaaggta gaatttactt ttcatagcaa aattaccata gtgctaaaat
     1921 tgtatttaaa aatacacttt aaattgtatt ttatagtaaa gaaattgact aaagccagac
     1981 atttgttata actttggttt tgttttgttt tttattgtgc attgatgttc tgcgtgcgta
     2041 tattcaagtg tgagtgtgtc agatcccctg gaactgaagt tacagacagt ggtgagctgc
     2101 catgcaggaa attgaacccg ggttctctta aagagcagac aacgctctta accactaagc
     2161 ccccatgatt ttggatctaa aggcttgtgg tatgtggtaa aggcttggtc agaagctcct
     2221 ggcactttgg acggtggagt gaggtcactg gggactagct cccagcgtga tgccactcct
     2281 caagcccaca tcccctgggc tgagcaagcc ctttcatgag cccctgtcat gatggacaaa
     2341 agggcgaagt gaccatggac tggcacgtcc accactgagc gagggctgca gagacgactc
     2401 cacagttaag agcacaaact actcttgcag aagatgtgag tttggttctt agcaacagtg
     2461 agtgattcac aactgcctgt aattgcaact ccagggactg gggggggggg gagggattta
     2521 atgccttcag cttcctttgg ctacattctc atgcgtacac ctgcacacag ttgcaaatat
     2581 acacacaatt taaaataaaa tgaagcttaa aggctatt
//
