LOCUS       NM_001252570            1300 bp    mRNA    linear   ROD 03-JUN-2024
DEFINITION  Mus musculus phytanoyl-CoA dioxygenase domain containing 1
            (Phyhd1), transcript variant 3, mRNA.
ACCESSION   NM_001252570
VERSION     NM_001252570.1
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 1300)
  AUTHORS   Furusawa,Y., Kubo,T. and Fukazawa,T.
  TITLE     Phyhd1, an XPhyH-like homologue, is induced in mouse T cells upon T
            cell stimulation
  JOURNAL   Biochem Biophys Res Commun 472 (3), 551-556 (2016)
   PUBMED   26970303
  REMARK    GeneRIF: Our findings suggest that Phyhd1 and Phyh have distinct
            roles in mouse leukocytes and Phyhd1 is related to T cell
            differentiation and/or function of effector T cells.
REFERENCE   2  (bases 1 to 1300)
  AUTHORS   Hackney,J.A., Charbord,P., Brunk,B.P., Stoeckert,C.J.,
            Lemischka,I.R. and Moore,K.A.
  TITLE     A molecular profile of a hematopoietic stem cell niche
  JOURNAL   Proc Natl Acad Sci U S A 99 (20), 13061-13066 (2002)
   PUBMED   12226475
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AL845258.5, BQ829083.1, AK138607.1 and AL954388.5.
            
            Transcript Variant: This variant (3) differs in the 5' UTR, lacks a
            portion of the 5' coding region and initiates translation at a
            downstream, in-frame start codon, compared to variant 1. The
            encoded isoform (3) has a shorter N-terminus, compared to isoform
            1. Both variants 3 and 5 encode the same isoform (3).
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data to make the sequence consistent with the
            reference genome assembly. The genomic coordinates used for the
            transcript record were based on transcript alignments.
            
            ##Evidence-Data-START##
            RNAseq introns :: single sample supports all introns SAMN00849374,
                              SAMN00849375 [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-4                 AL845258.5         153168-153171
            5-557               BQ829083.1         1-553
            558-1296            AK138607.1         612-1350
            1297-1300           AL954388.5         6171-6174
FEATURES             Location/Qualifiers
     source          1..1300
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="2"
                     /map="2 21.46 cM"
     gene            1..1300
                     /gene="Phyhd1"
                     /note="phytanoyl-CoA dioxygenase domain containing 1"
                     /db_xref="GeneID:227696"
                     /db_xref="MGI:MGI:3612860"
     exon            1..123
                     /gene="Phyhd1"
                     /inference="alignment:Splign:2.1.0"
     CDS             91..966
                     /gene="Phyhd1"
                     /note="isoform 3 is encoded by transcript variant 3;
                     phytanoyl-CoA dioxygenase domain-containing protein 1"
                     /codon_start=1
                     /product="phytanoyl-CoA dioxygenase domain-containing
                     protein 1 isoform 3"
                     /protein_id="NP_001239499.1"
                     /db_xref="CCDS:CCDS57163.1"
                     /db_xref="GeneID:227696"
                     /db_xref="MGI:MGI:3612860"
                     /translation="MACLSPSQLKKFQEDGFLLLEGFFTADECVAMQQRIGEIVAEMD
                     VPLHCRTEFSTQEDEQLQTQGKTDYFLSSGDKIRFFFEKGVFDEKGNFLVPPEKSINK
                     IGHALHAHDPVFRSITHSPKVQALVRSLGLQMPVVVQSMYIFKQPHFGGEVSPHQDAT
                     FLYTEPLGRVLGLWIAMEDAMLENGCLWFIPGSHTRGVSRRMIRAPSDSGPGTSFLGS
                     DPAWASNLFVPLPVRRGGLVLIHGEVVHKSEQNHSDHSRQAYTVHLMEAAGTVWSPGN
                     WLQPTPELPFPPLYS"
     exon            124..282
                     /gene="Phyhd1"
                     /inference="alignment:Splign:2.1.0"
     exon            283..358
                     /gene="Phyhd1"
                     /inference="alignment:Splign:2.1.0"
     exon            359..406
                     /gene="Phyhd1"
                     /inference="alignment:Splign:2.1.0"
     exon            407..462
                     /gene="Phyhd1"
                     /inference="alignment:Splign:2.1.0"
     exon            463..525
                     /gene="Phyhd1"
                     /inference="alignment:Splign:2.1.0"
     exon            526..547
                     /gene="Phyhd1"
                     /inference="alignment:Splign:2.1.0"
     exon            548..676
                     /gene="Phyhd1"
                     /inference="alignment:Splign:2.1.0"
     exon            677..793
                     /gene="Phyhd1"
                     /inference="alignment:Splign:2.1.0"
     exon            794..920
                     /gene="Phyhd1"
                     /inference="alignment:Splign:2.1.0"
     exon            921..1300
                     /gene="Phyhd1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1278..1283
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Phyhd1"
                     /note="hexamer: AATAAA"
     polyA_site      1299
                     /gene="Phyhd1"
                     /note="major polyA site"
ORIGIN      
        1 tcagtcactg gtctttctcc cctcctgaac tttctcctct ccagccctgg agccatcgag
       61 ctgagccagc tgagtcctgc agtattcccc atggcctgcc tgagtccctc acaactcaag
      121 aagttccagg aggacgggtt tctgctgttg gaaggattct tcacagcgga tgagtgtgtg
      181 gccatgcagc agaggatcgg tgagattgta gctgagatgg atgtccctct gcactgccgg
      241 acagaatttt ccacccagga agatgagcaa cttcaaaccc agggcaagac agactacttc
      301 ttgagcagcg gtgacaagat ccgattcttc tttgaaaaag gcgtttttga tgagaaagga
      361 aatttcttgg tccctcctga gaaatctatc aacaaaattg gccatgctct gcatgcccat
      421 gaccctgtct tcaggagcat cacacattct cccaaggtgc aggctttggt tagaagtctg
      481 ggcctccaga tgccagtggt ggtgcagagc atgtatatct ttaagcaacc tcactttggc
      541 ggcgaagtct cccctcacca ggatgctacc ttcctctaca cggagcccct aggccgagtg
      601 ttgggcctgt ggattgcgat ggaggatgcc atgctggaga acggttgcct ctggttcatc
      661 cctggctccc atacccgtgg ggtgtcaaga aggatgattc gagccccttc agactctggg
      721 cctggcacca gcttcctcgg gtcagatcca gcctgggcta gcaacctctt tgtgcctttg
      781 ccagtgagga gagggggtct ggttctgatc catggagaag tggtgcataa gagtgagcag
      841 aaccattccg accactcccg ccaggcctac actgtccacc tcatggaggc tgccggcact
      901 gtctggagcc cagggaattg gctccagccc acgcccgagc tgcccttccc accactctac
      961 agctaaaggc cctggcagga cagggcaggt ccccaaggga tgctgacaac accaggctat
     1021 ctggctgcaa ctcaagggca cgtcttcctc tatgggcttt ctttctgatg gtgtctgtga
     1081 ccttggtcca gcagacaggg agccaagaag taaaaatgag ggcaggagcc caggctgcac
     1141 aagggtcttc ttccaaaatt ttctctctat atacctttct gtcccaaccc agctttctga
     1201 agtggctgct taaccatgca aggattgtgt ttgagtctca cttttctctt ggatggatgt
     1261 tactgtgtaa ggcactgaat aaaaacgact taaaatatat
//
