LOCUS       NM_008261               4391 bp    mRNA    linear   ROD 24-OCT-2024
DEFINITION  Mus musculus hepatic nuclear factor 4, alpha (Hnf4a), transcript
            variant 1, mRNA.
ACCESSION   NM_008261
VERSION     NM_008261.3
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 4391)
  AUTHORS   Telang,A.C., Ference-Salo,J.T., McElliott,M.C., Chowdhury,M. and
            Beamish,J.A.
  TITLE     Sustained alterations in proximal tubule gene expression in primary
            culture associate with HNF4A loss
  JOURNAL   Sci Rep 14 (1), 22927 (2024)
   PUBMED   39358473
  REMARK    GeneRIF: Sustained alterations in proximal tubule gene expression
            in primary culture associate with HNF4A loss.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4391)
  AUTHORS   Tadokoro,T., Murata,S., Kato,M., Ueno,Y., Tsuchida,T., Okumura,A.,
            Kuse,Y., Konno,T., Uchida,Y., Yamakawa,Y., Zushi,M., Yajima,M.,
            Kobayashi,T., Hasegawa,S., Kawakatsu-Hatada,Y., Hayashi,Y.,
            Osakabe,S., Maeda,T., Kimura,K., Mori,A., Tanaka,M.,
            Kamishibahara,Y., Matsuo,M., Nie,Y.Z., Okamoto,S., Oba,T.,
            Tanimizu,N. and Taniguchi,H.
  TITLE     Human iPSC-liver organoid transplantation reduces fibrosis through
            immunomodulation
  JOURNAL   Sci Transl Med 16 (757), eadg0338 (2024)
   PUBMED   39047116
REFERENCE   3  (bases 1 to 4391)
  AUTHORS   Tsukamoto,R., Watanabe,K., Kodaka,M., Iwase,M., Sakiyama,H.,
            Inoue,Y., Suzuki,T., Yamamoto,Y., Shimizu,M., Sato,R. and Inoue,J.
  TITLE     HNF4alpha is required for Tkfc promoter activation by ChREBP
  JOURNAL   Biosci Biotechnol Biochem 88 (8), 941-947 (2024)
   PUBMED   38782732
  REMARK    GeneRIF: HNF4alpha is required for Tkfc promoter activation by
            ChREBP.
REFERENCE   4  (bases 1 to 4391)
  AUTHORS   Yang,J., Zhang,Y.N., Wang,R.X., Hao,C.Z., Qiu,Y., Chi,H.,
            Luan,W.S., Tang,H., Zhang,X.J., Sun,X., Sheps,J.A., Ling,V., Cao,M.
            and Wang,J.S.
  TITLE     ZFYVE19 deficiency: a ciliopathy involving failure of cell
            division, with cell death
  JOURNAL   J Med Genet 61 (8), 750-758 (2024)
   PUBMED   38816193
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 4391)
  AUTHORS   Vemuri,K., Kumar,S., Chen,L. and Verzi,M.P.
  TITLE     Dynamic RNA polymerase II occupancy drives differentiation of the
            intestine under the direction of HNF4
  JOURNAL   Cell Rep 43 (6), 114242 (2024)
   PUBMED   38768033
  REMARK    GeneRIF: Dynamic RNA polymerase II occupancy drives differentiation
            of the intestine under the direction of HNF4.
REFERENCE   6  (bases 1 to 4391)
  AUTHORS   Huang,J., Levitsky,L.L. and Rhoads,D.B.
  TITLE     Novel P2 promoter-derived HNF4alpha isoforms with different
            N-terminus generated by alternate exon insertion
  JOURNAL   Exp Cell Res 315 (7), 1200-1211 (2009)
   PUBMED   19353766
REFERENCE   7  (bases 1 to 4391)
  AUTHORS   Ginsburg,G.S., Ozer,J. and Karathanasis,S.K.
  TITLE     Intestinal apolipoprotein AI gene transcription is regulated by
            multiple distinct DNA elements and is synergistically activated by
            the orphan nuclear receptor, hepatocyte nuclear factor 4
  JOURNAL   J Clin Invest 96 (1), 528-538 (1995)
   PUBMED   7615825
REFERENCE   8  (bases 1 to 4391)
  AUTHORS   Williamson,C.M., Dutton,E.R., Abbott,C.M., Beechey,C.V., Ball,S.T.
            and Peters,J.
  TITLE     Thirteen genes (Cebpb, E2f1, Tcf4, Cyp24, Pck1, Acra4, Edn3, Kcnb1,
            Mc3r, Ntsr, Cd40, Plcg1 and Rcad) that probably lie in the distal
            imprinting region of mouse chromosome 2 are not monoallelically
            expressed
  JOURNAL   Genet Res 65 (2), 83-93 (1995)
   PUBMED   7781998
REFERENCE   9  (bases 1 to 4391)
  AUTHORS   Zhong,W., Mirkovitch,J. and Darnell,J.E. Jr.
  TITLE     Tissue-specific regulation of mouse hepatocyte nuclear factor 4
            expression
  JOURNAL   Mol Cell Biol 14 (11), 7276-7284 (1994)
   PUBMED   7523862
REFERENCE   10 (bases 1 to 4391)
  AUTHORS   Avraham,K.B., Prezioso,V.R., Chen,W.S., Lai,E., Sladek,F.M.,
            Zhong,W., Darnell,J.E. Jr., Jenkins,N.A. and Copeland,N.G.
  TITLE     Murine chromosomal location of four hepatocyte-enriched
            transcription factors: HNF-3 alpha, HNF-3 beta, HNF-3 gamma, and
            HNF-4
  JOURNAL   Genomics 13 (2), 264-268 (1992)
   PUBMED   1612587
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from BY034048.1, AK143948.1 and
            AL591488.7.
            
            On Aug 22, 2015 this sequence version replaced NM_008261.2.
            
            Summary: The protein encoded by this gene is a transcription factor
            involved in the development of the pancreas, liver, kidney, and
            intestines. The encoded protein also functions to maintain glucose
            homeostasis. Several transcript variants encoding different
            isoforms have been found for this gene. [provided by RefSeq, Aug
            2015].
            
            Transcript Variant: This variant (1) encodes the longest isoform
            (HNF4alpha2).
            
            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.
            
            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 :: BC039220.1, D29015.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849377, SAMN00849378
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            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
            1-11                BY034048.1         2-12
            12-1243             AK143948.1         4-1235
            1244-1244           AL591488.7         131606-131606
            1245-1561           AK143948.1         1237-1553
            1562-4391           AL591488.7         135362-138191
FEATURES             Location/Qualifiers
     source          1..4391
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="2"
                     /map="2 84.32 cM"
     gene            1..4391
                     /gene="Hnf4a"
                     /gene_synonym="HNF-4; Hnf4; Hnf4alpha; MODY1; Nr2a1;
                     TCF-14; Tcf14"
                     /note="hepatic nuclear factor 4, alpha"
                     /db_xref="GeneID:15378"
                     /db_xref="MGI:MGI:109128"
     exon            1..265
                     /gene="Hnf4a"
                     /gene_synonym="HNF-4; Hnf4; Hnf4alpha; MODY1; Nr2a1;
                     TCF-14; Tcf14"
                     /inference="alignment:Splign:2.1.0"
     exon            266..440
                     /gene="Hnf4a"
                     /gene_synonym="HNF-4; Hnf4; Hnf4alpha; MODY1; Nr2a1;
                     TCF-14; Tcf14"
                     /inference="alignment:Splign:2.1.0"
     exon            441..535
                     /gene="Hnf4a"
                     /gene_synonym="HNF-4; Hnf4; Hnf4alpha; MODY1; Nr2a1;
                     TCF-14; Tcf14"
                     /inference="alignment:Splign:2.1.0"
     exon            536..642
                     /gene="Hnf4a"
                     /gene_synonym="HNF-4; Hnf4; Hnf4alpha; MODY1; Nr2a1;
                     TCF-14; Tcf14"
                     /inference="alignment:Splign:2.1.0"
     exon            643..798
                     /gene="Hnf4a"
                     /gene_synonym="HNF-4; Hnf4; Hnf4alpha; MODY1; Nr2a1;
                     TCF-14; Tcf14"
                     /inference="alignment:Splign:2.1.0"
     exon            799..886
                     /gene="Hnf4a"
                     /gene_synonym="HNF-4; Hnf4; Hnf4alpha; MODY1; Nr2a1;
                     TCF-14; Tcf14"
                     /inference="alignment:Splign:2.1.0"
     exon            887..1042
                     /gene="Hnf4a"
                     /gene_synonym="HNF-4; Hnf4; Hnf4alpha; MODY1; Nr2a1;
                     TCF-14; Tcf14"
                     /inference="alignment:Splign:2.1.0"
     exon            1043..1279
                     /gene="Hnf4a"
                     /gene_synonym="HNF-4; Hnf4; Hnf4alpha; MODY1; Nr2a1;
                     TCF-14; Tcf14"
                     /inference="alignment:Splign:2.1.0"
     exon            1280..1432
                     /gene="Hnf4a"
                     /gene_synonym="HNF-4; Hnf4; Hnf4alpha; MODY1; Nr2a1;
                     TCF-14; Tcf14"
                     /inference="alignment:Splign:2.1.0"
     exon            1433..4391
                     /gene="Hnf4a"
                     /gene_synonym="HNF-4; Hnf4; Hnf4alpha; MODY1; Nr2a1;
                     TCF-14; Tcf14"
                     /inference="alignment:Splign:2.1.0"
     regulatory      4367..4372
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Hnf4a"
                     /gene_synonym="HNF-4; Hnf4; Hnf4alpha; MODY1; Nr2a1;
                     TCF-14; Tcf14"
                     /note="hexamer: AATAAA"
     polyA_site      4391
                     /gene="Hnf4a"
                     /gene_synonym="HNF-4; Hnf4; Hnf4alpha; MODY1; Nr2a1;
                     TCF-14; Tcf14"
                     /note="major polyA site"
ORIGIN      
        1 agaggacagt ttgaaagaga ggaaggcaga gaagggacct gggaggaggc aggaggaggg
       61 cggggacggg gggggctggg gctcagccca ggggcttggg tggcatcctg ggccgggcag
      121 gacagggggc taaggcgtgg gtaggggaga atgcgactct ctaaaaccct tgccggcatg
      181 gatatggccg actacagcgc tgccctggac ccagcctaca ccaccctgga gtttgaaaat
      241 gtgcaggtgt tgaccatggg caatgacacg tccccatctg aaggtgccaa cctcaattca
      301 tccaacagcc tgggcgtcag tgccctgtgc gccatctgtg gcgaccgggc caccggcaaa
      361 cactacggag cctcgagctg tgacggctgc aaggggttct tcaggaggag cgtgaggaag
      421 aaccacatgt actcctgcag gtttagccga caatgtgtgg tagacaaaga taagaggaac
      481 cagtgtcgtt actgcaggct taagaagtgc ttccgggctg gcatgaagaa ggaagctgtc
      541 caaaatgagc gggaccggat cagcacgcgg aggtcaagct acgaggacag cagcctgccc
      601 tccatcaacg cgctcctgca ggcagaggtt ctgtcccagc agatcacctc tcccatctct
      661 gggatcaatg gcgacattcg ggcaaagaag attgccaaca tcacagacgt gtgtgagtct
      721 atgaaggagc agctgctggt cctggtcgag tgggccaagt acatcccggc cttctgcgaa
      781 ctccttctgg atgaccaggt ggcgctgctc agggcccacg ccggtgagca tctgctgctt
      841 ggagccacca agaggtccat ggtgtttaag gacgtgctgc tcctaggcaa tgactacatc
      901 gtccctcggc actgtccaga gctagcggag atgagccgtg tgtccatccg catcctcgat
      961 gagctggtcc tgcccttcca agagctgcag attgatgaca atgaatatgc ctgcctcaaa
     1021 gccatcatct tctttgatcc agatgccaag gggctgagtg acccgggcaa gatcaagcgg
     1081 ctgcggtcac aggtgcaagt gagcctggag gattacatca acgaccggca gtacgactct
     1141 cggggccgct ttggagagct gctgctgctg ttgcccacgc tgcagagcat cacctggcag
     1201 atgatcgaac agatccagtt catcaagctc ttcggcatgg ccaagattga caacctgctg
     1261 caggagatgc ttctcggagg gtctgccagt gatgcacccc acacccacca ccccctgcac
     1321 cctcacctga tgcaagaaca catgggcacc aatgtcattg ttgctaacac gatgccctct
     1381 cacctcagca atggacagat gtgtgagtgg ccccgaccca gggggcaggc agccactccc
     1441 gagactccac agccatcacc accaagtggc tcgggatctg aatcctacaa gctcctgcca
     1501 ggagccatca ccaccatcgt caagcctccc tctgccattc cccagccaac gatcaccaag
     1561 caagaagcca tctagcaagc tgctgggggg gtcaggggtt ctgctggctc ataccctcag
     1621 aagagcacct gggagtaacc tagtcatggc aaagaagatg tgacacgagg gaccagtccc
     1681 agagcagcta cagaaagggt gtgaggcccc aaaaccgtgt gctgaggggc gaatgcgtcg
     1741 ccacccctga ccccgcatct ggagggcggg gctttgcttg agaagacccc agggaggact
     1801 gtcttccact gcctggactc ctctcaagtt gaagtcatcg tcttcatctt cctccgtatc
     1861 ttcttccctc aacttcttca cccctgaagg acgactgtct gcagatgttg caggaccttg
     1921 ttttaaaatc aactcccttc tctcccagcg gggggcctct tccttcctgg tgctggtcag
     1981 ggggcctgga aacaaacttt ctgaggctgg gtcagcttgc cttatagtac tcctctcctg
     2041 ctatgccaac ctcaggtgac ctgctaccat cctctatacc ttcctccgcc atctgacttc
     2101 tctaaagcca tctctctgga ggctgaggaa gctgtggtaa ccatttcccc actcattctg
     2161 agagccttct gtaagcactg acctgggtaa ggcagagggt aggagtcacc atccctcctc
     2221 tgccaatatc gctacaactc ctgcctccag cactaggcta taactttgga gtgataagtc
     2281 ctatggcttt ctacagtaga gaaccaccca agggtgtcga ttataacaga atgtggagag
     2341 tgggtggccg tcattgggaa agcatcgaga aagaggcgag ctttgcatct gtcccttgac
     2401 agggaaggta ggcttctggc tagcagagca ggtgacacaa accagtttat tggagaacag
     2461 cctggacaaa ggcccatagg taggtaaaat agtatgggag ggaggcaatg aagaaatcag
     2521 ttcccatgga gttgtgacag ggtacacact ggggaccatt gaatgacaaa ctgaggtcag
     2581 gggtagctgc agtgtggggc tgtcagaaga tgaatacagc atcccgcaga ggtaggatat
     2641 gaggaggcta tactggagcg tagggatgag ataaagggat ggatccgagt cctcccgggg
     2701 cctgccaagc ttttccatac ttccagatga tgttataagg cattaaacag ccaccatcgc
     2761 atagaacctt ccctgtaacc cagacattgt caaggaagat atacgtagag gatcttaact
     2821 gactcacagg aagcacttgt cccccctggc acggaatcca gagggttcct cgtcctttac
     2881 cagtgtcaac cccagaggct ttctctctcc agaactggcc agctagagac cgttctaaag
     2941 tccactggaa gtcaagaatc tcgtttactg ataatagtaa agttgattca tgacccctgt
     3001 cctttttttt ctactgatct acccaagtgt aggtgagccg cagcagggag tgattcctag
     3061 aagacggatc agtctagtct ggcagtcaag gctcaggagt ttgggagagg ggcaggagaa
     3121 ggataagaaa gcctgggttt taggcttgcc tgggaagcta cagtcaaggt gcattctggg
     3181 agctactcat ccccagcagt tagcgctccg ccccggttga ctcttgatgg ctttgcggag
     3241 cccctgcaaa gtgtcactag tcaatgggaa caagaggaat gtcccctggt ctggaagtgt
     3301 gctaagtgga aggaatgggc tgtgagactg gatagttatg gtgcatcaag gctgatcctt
     3361 ctgattgggt ggggcgagca tcccagtgtc caaaaattcc agcctaaatg acaggtcctc
     3421 tgaaaaagag gtgctgagga gtaatggggc cagctgatta aagaaaaaga acccccacac
     3481 aacaggactg tcaggacaga ttgagttaac ccctcaagcc aagtcccggg tgtcaggaac
     3541 agttgtccat gctcagagcc ctcaagccat ccttggccac tctcactcca gtgcccccca
     3601 gagaccccag ccagatggct cagactgtcc tgcatgaagg caggagagct gaactctctc
     3661 tggtccttgt ctttcccaat ctttgtccct ccatccccag tggcatcagg agaggagtag
     3721 gtaatgttgg ccttcagtgg tagcagtctt ctggggcagg ggtcagccac tgtcccaatc
     3781 agtcctttct gaaggagaaa cccattccac attaacaaat ttattacagt acagggaaca
     3841 tggaataaag gaaagtttac tcttctgatt ataagctgag gatgctatgt tgcagtttgt
     3901 ttgcttgttt ttttcttctg agctttgttt ctagtacacg atatgacggg accaagtaca
     3961 agctggtggt ggacagagct gggtgccaca gttttccacc aagagcagcc tcttttcttc
     4021 atggagttct cagaaccttt cagggttcag gaggctcccc tgagaataga caggagaggg
     4081 tcagaagcag acgtcctcct tttcttgtga taaccacgct acttgccttt gctagagctc
     4141 tctgtggcca accctgggaa atgctaatca tgaccttcac accaaacatt cagaagtagg
     4201 ctgtgtccca tcagatcaat ctgcaccttc ctgtggttgt gcaaacatca cggggcccta
     4261 ccctgatccc caaggcccca ccatcactgc ccaagggggt aaaaaagaga aaaagccctc
     4321 aaaaacagtt cttactcctg tgttttagca aaaatttatc aaacaaaata aatggtactt
     4381 atgttttcta a
//
