LOCUS       NM_031210                376 bp    mRNA    linear   PRI 21-SEP-2024
DEFINITION  Homo sapiens SRA stem-loop interacting RNA binding protein (SLIRP),
            transcript variant 1, mRNA; nuclear gene for mitochondrial product.
ACCESSION   NM_031210
VERSION     NM_031210.6
KEYWORDS    RefSeq; MANE Select.
SOURCE      Homo sapiens (human)
  ORGANISM  Homo sapiens
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
            Catarrhini; Hominidae; Homo.
REFERENCE   1  (bases 1 to 376)
  AUTHORS   Baleva,M.V., Piunova,U., Chicherin,I., Vasilev,R., Levitskii,S. and
            Kamenski,P.
  TITLE     Mitochondrial Protein SLIRP Affects Biosynthesis of Cytochrome c
            Oxidase Subunits in HEK293T Cells
  JOURNAL   Int J Mol Sci 25 (1), 93 (2023)
   PUBMED   38203264
  REMARK    GeneRIF: Mitochondrial Protein SLIRP Affects Biosynthesis of
            Cytochrome c Oxidase Subunits in HEK293T Cells.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 376)
  AUTHORS   Morgenstern,M., Peikert,C.D., Lubbert,P., Suppanz,I., Klemm,C.,
            Alka,O., Steiert,C., Naumenko,N., Schendzielorz,A., Melchionda,L.,
            Muhlhauser,W.W.D., Knapp,B., Busch,J.D., Stiller,S.B.,
            Dannenmaier,S., Lindau,C., Licheva,M., Eickhorst,C., Galbusera,R.,
            Zerbes,R.M., Ryan,M.T., Kraft,C., Kozjak-Pavlovic,V., Drepper,F.,
            Dennerlein,S., Oeljeklaus,S., Pfanner,N., Wiedemann,N. and
            Warscheid,B.
  TITLE     Quantitative high-confidence human mitochondrial proteome and its
            dynamics in cellular context
  JOURNAL   Cell Metab 33 (12), 2464-2483 (2021)
   PUBMED   34800366
REFERENCE   3  (bases 1 to 376)
  AUTHORS   Guo,L., Engelen,B.P.H., Hemel,I.M.G.M., de Coo,I.F.M., Vreeburg,M.,
            Sallevelt,S.C.E.H., Hellebrekers,D.M.E.I., Jacobs,E.H.,
            Sadeghi-Niaraki,F., van Tienen,F.H.J., Smeets,H.J.M. and Gerards,M.
  TITLE     Pathogenic SLIRP variants as a novel cause of autosomal recessive
            mitochondrial encephalomyopathy with complex I and IV deficiency
  JOURNAL   Eur J Hum Genet 29 (12), 1789-1795 (2021)
   PUBMED   34426662
  REMARK    GeneRIF: Pathogenic SLIRP variants as a novel cause of autosomal
            recessive mitochondrial encephalomyopathy with complex I and IV
            deficiency.
REFERENCE   4  (bases 1 to 376)
  AUTHORS   Huttlin,E.L., Bruckner,R.J., Navarrete-Perea,J., Cannon,J.R.,
            Baltier,K., Gebreab,F., Gygi,M.P., Thornock,A., Zarraga,G., Tam,S.,
            Szpyt,J., Gassaway,B.M., Panov,A., Parzen,H., Fu,S., Golbazi,A.,
            Maenpaa,E., Stricker,K., Guha Thakurta,S., Zhang,T., Rad,R.,
            Pan,J., Nusinow,D.P., Paulo,J.A., Schweppe,D.K., Vaites,L.P.,
            Harper,J.W. and Gygi,S.P.
  TITLE     Dual proteome-scale networks reveal cell-specific remodeling of the
            human interactome
  JOURNAL   Cell 184 (11), 3022-3040 (2021)
   PUBMED   33961781
REFERENCE   5  (bases 1 to 376)
  AUTHORS   Shan,D., Arhin,S.K., Zhao,J., Xi,H., Zhang,F., Zhu,C. and Hu,Y.
  TITLE     Effects of SLIRP on Sperm Motility and Oxidative Stress
  JOURNAL   Biomed Res Int 2020, 9060356 (2020)
   PUBMED   33150185
  REMARK    GeneRIF: Effects of SLIRP on Sperm Motility and Oxidative Stress.
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 376)
  AUTHORS   Zhao,X., Leon,I.R., Bak,S., Mogensen,M., Wrzesinski,K., Hojlund,K.
            and Jensen,O.N.
  TITLE     Phosphoproteome analysis of functional mitochondria isolated from
            resting human muscle reveals extensive phosphorylation of inner
            membrane protein complexes and enzymes
  JOURNAL   Mol Cell Proteomics 10 (1), M110.000299 (2011)
   PUBMED   20833797
REFERENCE   7  (bases 1 to 376)
  AUTHORS   Sasarman,F., Brunel-Guitton,C., Antonicka,H., Wai,T. and
            Shoubridge,E.A.
  CONSRTM   LSFC Consortium
  TITLE     LRPPRC and SLIRP interact in a ribonucleoprotein complex that
            regulates posttranscriptional gene expression in mitochondria
  JOURNAL   Mol Biol Cell 21 (8), 1315-1323 (2010)
   PUBMED   20200222
  REMARK    GeneRIF: LRPPRC exists in a high-molecular-weight complex, and it
            coimmunoprecipitates with SLIRP, a stem-loop RNA-binding protein.
REFERENCE   8  (bases 1 to 376)
  AUTHORS   Baughman,J.M., Nilsson,R., Gohil,V.M., Arlow,D.H., Gauhar,Z. and
            Mootha,V.K.
  TITLE     A computational screen for regulators of oxidative phosphorylation
            implicates SLIRP in mitochondrial RNA homeostasis
  JOURNAL   PLoS Genet 5 (8), e1000590 (2009)
   PUBMED   19680543
  REMARK    GeneRIF: SLIRP plays an essential role in maintaining
            mitochondrial-localized mRNA transcripts that encode OxPhos protein
            subunits.
            Erratum:[PLoS Genet. 2010;6(3). doi:
            10.1371/annotation/36fe7624-0904-46d4-a013-4be6195245c4]
REFERENCE   9  (bases 1 to 376)
  AUTHORS   Hatchell,E.C., Colley,S.M., Beveridge,D.J., Epis,M.R., Stuart,L.M.,
            Giles,K.M., Redfern,A.D., Miles,L.E., Barker,A., MacDonald,L.M.,
            Arthur,P.G., Lui,J.C., Golding,J.L., McCulloch,R.K., Metcalf,C.B.,
            Wilce,J.A., Wilce,M.C., Lanz,R.B., O'Malley,B.W. and Leedman,P.J.
  TITLE     SLIRP, a small SRA binding protein, is a nuclear receptor
            corepressor
  JOURNAL   Mol Cell 22 (5), 657-668 (2006)
   PUBMED   16762838
  REMARK    GeneRIF: Our data demonstrate that SLIRP modulates NR
            transactivation, suggest it may regulate mitochondrial function,
            and provide mechanistic insight into interactions between SRA,
            SLIRP, SRC-1, and NCoR.
REFERENCE   10 (bases 1 to 376)
  AUTHORS   Oh,J.H., Yang,J.O., Hahn,Y., Kim,M.R., Byun,S.S., Jeon,Y.J.,
            Kim,J.M., Song,K.S., Noh,S.M., Kim,S., Yoo,H.S., Kim,Y.S. and
            Kim,N.S.
  TITLE     Transcriptome analysis of human gastric cancer
  JOURNAL   Mamm Genome 16 (12), 942-954 (2005)
   PUBMED   16341674
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            BU960115.1 and AY860853.1.
            
            On Jul 29, 2019 this sequence version replaced NM_031210.5.
            
            Summary: Steroid receptor RNA activator (SRA, or SRA1; MIM 603819)
            is a complex RNA molecule containing multiple stable stem-loop
            structures that functions in coactivation of nuclear receptors.
            SLIRP interacts with stem-loop structure-7 of SRA (STR7) and
            modulates nuclear receptor transactivation (Hatchell et al., 2006
            [PubMed 16762838]).[supplied by OMIM, Mar 2008].
            
            Transcript Variant: This variant (1) encodes the longest isoform
            (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 :: BM854520.1, BU534005.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            gene product(s) localized to mito. :: reported by MitoCarta
            MANE Ensembl match                 :: ENST00000557342.6/
                                                  ENSP00000450909.1
            RefSeq Select criteria             :: based on conservation,
                                                  expression, longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-28                BU960115.1         11-38
            29-376              AY860853.1         20-367
FEATURES             Location/Qualifiers
     source          1..376
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="14"
                     /map="14q24.3"
     gene            1..376
                     /gene="SLIRP"
                     /gene_synonym="C14orf156; DC50; PD04872"
                     /note="SRA stem-loop interacting RNA binding protein"
                     /db_xref="GeneID:81892"
                     /db_xref="HGNC:HGNC:20495"
                     /db_xref="MIM:610211"
     exon            1..106
                     /gene="SLIRP"
                     /gene_synonym="C14orf156; DC50; PD04872"
                     /inference="alignment:Splign:2.1.0"
     CDS             10..339
                     /gene="SLIRP"
                     /gene_synonym="C14orf156; DC50; PD04872"
                     /note="isoform 1 precursor is encoded by transcript
                     variant 1; SRA stem-loop-interacting RNA-binding protein,
                     mitochondrial"
                     /codon_start=1
                     /product="SRA stem-loop-interacting RNA-binding protein,
                     mitochondrial isoform 1 precursor"
                     /protein_id="NP_112487.1"
                     /db_xref="CCDS:CCDS9866.1"
                     /db_xref="GeneID:81892"
                     /db_xref="HGNC:HGNC:20495"
                     /db_xref="MIM:610211"
                     /translation="MAASAARGAAALRRSINQPVAFVRRIPWTAASSQLKEHFAQFGH
                     VRRCILPFDKETGFHRGLGWVQFSSEEGLRNALQQENHIIDGVKVQVHTRRPKLPQTS
                     DDEKKDF"
     exon            107..165
                     /gene="SLIRP"
                     /gene_synonym="C14orf156; DC50; PD04872"
                     /inference="alignment:Splign:2.1.0"
     exon            166..273
                     /gene="SLIRP"
                     /gene_synonym="C14orf156; DC50; PD04872"
                     /inference="alignment:Splign:2.1.0"
     exon            274..376
                     /gene="SLIRP"
                     /gene_synonym="C14orf156; DC50; PD04872"
                     /inference="alignment:Splign:2.1.0"
     regulatory      354..359
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SLIRP"
                     /gene_synonym="C14orf156; DC50; PD04872"
                     /note="hexamer: AATAAA"
     polyA_site      376
                     /gene="SLIRP"
                     /gene_synonym="C14orf156; DC50; PD04872"
                     /note="major polyA site"
ORIGIN      
        1 agtctgaaga tggcggcctc agcagcgaga ggtgctgcgg cgctgcgtag aagtatcaat
       61 cagccggttg cttttgtgag aagaattcct tggactgcgg cgtcgagtca gctgaaagaa
      121 cactttgcac agttcggcca tgtcagaagg tgcattttac cttttgacaa ggagactggc
      181 tttcacagag gtttgggttg ggttcagttt tcttcagaag aaggacttcg gaatgcacta
      241 caacaggaaa atcatattat agatggagta aaggtccagg ttcacactag aaggccaaaa
      301 cttccgcaaa catctgatga tgaaaagaaa gatttttgag actgcagcct attaataaag
      361 ttaacataac tgagaa
//
