LOCUS       NM_001139512            1477 bp    mRNA    linear   ROD 22-DEC-2022
DEFINITION  Mus musculus hnRNP-associated with lethal yellow (Raly), transcript
            variant 4, mRNA.
ACCESSION   NM_001139512
VERSION     NM_001139512.1
KEYWORDS    RefSeq.
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 1477)
  AUTHORS   Pan Z, Du S, Wang K, Guo X, Mao Q, Feng X, Huang L, Wu S, Hou B,
            Chang YJ, Liu T, Chen T, Li H, Bachmann T, Bekker A, Hu H and Tao
            YX.
  TITLE     Downregulation of a Dorsal Root Ganglion-Specifically Enriched Long
            Noncoding RNA is Required for Neuropathic Pain by Negatively
            Regulating RALY-Triggered Ehmt2 Expression
  JOURNAL   Adv Sci (Weinh) 8 (13), e2004515 (2021)
   PUBMED   34383386
  REMARK    GeneRIF: Downregulation of a Dorsal Root Ganglion-Specifically
            Enriched Long Noncoding RNA is Required for Neuropathic Pain by
            Negatively Regulating RALY-Triggered Ehmt2 Expression.
REFERENCE   2  (bases 1 to 1477)
  AUTHORS   Zhang Z, Feng AC, Salisbury D, Liu X, Wu X, Kim J, Lapina I, Wang
            D, Lee B, Fraga J, Pan C, Williams KJ, Lusis AJ, Scumpia P and
            Sallam T.
  TITLE     Collaborative interactions of heterogenous ribonucleoproteins
            contribute to transcriptional regulation of sterol metabolism in
            mice
  JOURNAL   Nat Commun 11 (1), 984 (2020)
   PUBMED   32080181
  REMARK    GeneRIF: Liver-specific deletion of RALY alters hepatic lipid
            content and serum cholesterol level. RALY binds the promoter region
            of the master metabolic regulator Srebp2 and show that it directly
            interacts with coactivator Nuclear Transcription Factor Y (NFY) to
            influence cholesterogenic gene expression.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 1477)
  AUTHORS   Gasperini L, Rossi A, Cornella N, Peroni D, Zuccotti P, Potrich V,
            Quattrone A and Macchi P.
  TITLE     The hnRNP RALY regulates PRMT1 expression and interacts with the
            ALS-linked protein FUS: implication for reciprocal cellular
            localization
  JOURNAL   Mol Biol Cell 29 (26), 3067-3081 (2018)
   PUBMED   30354839
REFERENCE   4  (bases 1 to 1477)
  AUTHORS   Sallam T, Jones MC, Gilliland T, Zhang L, Wu X, Eskin A, Sandhu J,
            Casero D, Vallim TQ, Hong C, Katz M, Lee R, Whitelegge J and
            Tontonoz P.
  TITLE     Feedback modulation of cholesterol metabolism by the
            lipid-responsive non-coding RNA LeXis
  JOURNAL   Nature 534 (7605), 124-128 (2016)
   PUBMED   27251289
REFERENCE   5  (bases 1 to 1477)
  AUTHORS   Pohlmeier WE, Xie F, Kurz SG, Lu N and Wood JR.
  TITLE     Progressive obesity alters the steroidogenic response to ovulatory
            stimulation and increases the abundance of mRNAs stored in the
            ovulated oocyte
  JOURNAL   Mol Reprod Dev 81 (8), 735-747 (2014)
   PUBMED   24824196
REFERENCE   6  (bases 1 to 1477)
  AUTHORS   Stryke D, Kawamoto M, Huang CC, Johns SJ, King LA, Harper CA, Meng
            EC, Lee RE, Yee A, L'Italien L, Chuang PT, Young SG, Skarnes WC,
            Babbitt PC and Ferrin TE.
  TITLE     BayGenomics: a resource of insertional mutations in mouse embryonic
            stem cells
  JOURNAL   Nucleic Acids Res 31 (1), 278-281 (2003)
   PUBMED   12520002
REFERENCE   7  (bases 1 to 1477)
  AUTHORS   Khrebtukova I, Kuklin A, Woychik RP and Michaud EJ.
  TITLE     Alternative processing of the human and mouse raly genes(1)
  JOURNAL   Biochim Biophys Acta 1447 (1), 107-112 (1999)
   PUBMED   10500250
REFERENCE   8  (bases 1 to 1477)
  AUTHORS   Duhl DM, Stevens ME, Vrieling H, Saxon PJ, Miller MW, Epstein CJ
            and Barsh GS.
  TITLE     Pleiotropic effects of the mouse lethal yellow (Ay) mutation
            explained by deletion of a maternally expressed gene and the
            simultaneous production of agouti fusion RNAs
  JOURNAL   Development 120 (6), 1695-1708 (1994)
   PUBMED   8050375
REFERENCE   9  (bases 1 to 1477)
  AUTHORS   Michaud EJ, Bultman SJ, Klebig ML, van Vugt MJ, Stubbs LJ, Russell
            LB and Woychik RP.
  TITLE     A molecular model for the genetic and phenotypic characteristics of
            the mouse lethal yellow (Ay) mutation
  JOURNAL   Proc Natl Acad Sci U S A 91 (7), 2562-2566 (1994)
   PUBMED   8146154
REFERENCE   10 (bases 1 to 1477)
  AUTHORS   Michaud EJ, Bultman SJ, Stubbs LJ and Woychik RP.
  TITLE     The embryonic lethality of homozygous lethal yellow mice (Ay/Ay) is
            associated with the disruption of a novel RNA-binding protein
  JOURNAL   Genes Dev 7 (7A), 1203-1213 (1993)
   PUBMED   8319910
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            CO812619.1, BY028715.1, L17076.1 and CF424086.1.
            
            [WARNING] On May 6, 2023 this sequence was replaced by
            NM_001139512.2.
            
            Transcript Variant: This variant (4) has multiple differences in
            the 5' UTR and lacks an exon in the 5' coding region, compared to
            variant 1. It encodes a protein that is 16 amino acids shorter than
            the long isoform.
            
            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##
            CDS exon combination :: BC016587.1, AK152290.1 [ECO:0000331]
            RNAseq introns       :: single sample supports all introns
                                    SAMN00849374, SAMN00849375 [ECO:0000348]
            ##Evidence-Data-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-9                 CO812619.1         14-22
            10-366              BY028715.1         1-357
            367-1462            L17076.1           414-1509
            1463-1477           CF424086.1         79-93
FEATURES             Location/Qualifiers
     source          1..1477
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="2"
                     /map="2 76.83 cM"
     gene            1..1477
                     /gene="Raly"
                     /gene_synonym="Merc"
                     /note="hnRNP-associated with lethal yellow"
                     /db_xref="GeneID:19383"
                     /db_xref="MGI:MGI:97850"
     exon            1..122
                     /gene="Raly"
                     /gene_synonym="Merc"
                     /inference="alignment:Splign:2.1.0"
     exon            123..205
                     /gene="Raly"
                     /gene_synonym="Merc"
                     /inference="alignment:Splign:2.1.0"
     exon            206..470
                     /gene="Raly"
                     /gene_synonym="Merc"
                     /inference="alignment:Splign:2.1.0"
     CDS             215..1105
                     /gene="Raly"
                     /gene_synonym="Merc"
                     /note="short isoform is encoded by transcript variant 4;
                     RNA-binding protein Raly; hnRNP associated with lethal
                     yellow protein; maternally-expressed hnRNP C-related
                     protein"
                     /codon_start=1
                     /product="RNA-binding protein Raly short isoform"
                     /protein_id="NP_001132984.1"
                     /db_xref="CCDS:CCDS16939.1"
                     /db_xref="GeneID:19383"
                     /db_xref="MGI:MGI:97850"
                     /translation="MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSK
                     YGRVAGCSVHKGYAFVQYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPKGLK
                     RAATAIYRLFDYRGRLSPVPVPRAVPVKRPRVTVPLVRRVKTTIPVKLFARSTAVTTG
                     SAKIKLKSSELQTIKTELTQIKSNIDALLGRLEQIAEEQKANPDGKKKGDSSSGGGGG
                     SSGGGGSSNVGGGSSGGSGSCSSSSRLPAPQEDTASEAGTPQGEVQTRDDGDEEGLLT
                     HSEEELEHSQDTDAEDGALQ"
     exon            471..543
                     /gene="Raly"
                     /gene_synonym="Merc"
                     /inference="alignment:Splign:2.1.0"
     exon            544..710
                     /gene="Raly"
                     /gene_synonym="Merc"
                     /inference="alignment:Splign:2.1.0"
     exon            711..824
                     /gene="Raly"
                     /gene_synonym="Merc"
                     /inference="alignment:Splign:2.1.0"
     exon            825..1060
                     /gene="Raly"
                     /gene_synonym="Merc"
                     /inference="alignment:Splign:2.1.0"
     exon            1061..1109
                     /gene="Raly"
                     /gene_synonym="Merc"
                     /inference="alignment:Splign:2.1.0"
     exon            1110..1477
                     /gene="Raly"
                     /gene_synonym="Merc"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 gcccggcgcg aggggtgtgc agggagccca cgcgtttgga gagcccggcc cgtgcagggc
       61 ggcgctgggg actgagtgct cgggtggcag gatcctattc ggaggaccga gaggagaacc
      121 gggtgagccc tatttctaga gacagctgct gctgaccctg taactcaaag gacaaactag
      181 ctggctaaac tcattcttgg tactggtgaa caccatgtcc ttgaagattc agaccagcaa
      241 tgtaaccaac aagaatgacc ctaagtccat caactctcgg gtcttcatcg gaaatctaaa
      301 cacagctgtg gtgaagaagt cagatgtgga gaccatcttt tccaagtacg gccgagtggc
      361 tggttgctct gtgcacaaag gctatgcttt tgtccagtat gccaatgagc gccatgcccg
      421 ggcagctgtg ctgggagaga atgggcgggt gctggctgga cagaccctgg acatcaacat
      481 ggctggagag cccaagccta atagacccaa ggggctaaag agagcagcaa ctgccatcta
      541 caggctgttt gattatcgag gccgcctttc tccagtgcct gtgcccaggg cagttccggt
      601 gaagcgaccc cgtgttacag tccctttggt tcgccgtgtc aaaactacga tacctgtcaa
      661 gctctttgcc cgctccacag ctgtcactac tggctcagcc aaaatcaagt taaagagcag
      721 tgagctacag accatcaaaa cagagctgac acagatcaag tccaacatcg atgccctgtt
      781 gggtcgcttg gaacagattg ctgaggaaca gaaggccaac ccagatggca agaagaaggg
      841 tgacagcagc agtggtggag gaggaggcag cagtggtgga ggcggcagta gcaatgttgg
      901 tggtggcagc agcggcggca gcgggagctg cagcagcagc agccggctac cagcgcccca
      961 agaagacacg gcttctgagg caggcacacc ccaaggagaa gtccaaactc gagatgatgg
     1021 tgatgaggag ggactgctaa cacatagcga ggaggagctg gagcacagcc aggacacaga
     1081 tgcagaagat ggagccttgc agtaagcagc ttaacaggag cattggccac cagcagaagg
     1141 gcatcactgt ctcaggcctc aagccaggca cccatctctg gatgccagtc tatagcgggt
     1201 accagaggaa agctggcagc agtaactctc tccccatgca tcctagccag tgagtgctac
     1261 atcctttgca agtggagtta ctggcctacc cttaccccat gcattcttcc tgtctgcact
     1321 gcctgggcca aggggcagaa acactctgct cttcttcccc aggacattcc caggcttggg
     1381 gtttttctat aggtttgaaa gtaaaggggg gagggtggga agggtgggag gaacctgaca
     1441 ataaagagat tggatccaaa tatgctctga ggtggaa
//
