LOCUS       NM_181721               1101 bp    mRNA    linear   PRI 04-APR-2024
DEFINITION  Homo sapiens forkhead box R1 (FOXR1), mRNA.
ACCESSION   NM_181721 XM_290498
VERSION     NM_181721.3
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 1101)
  AUTHORS   Mota,A., Waxman,H.K., Hong,R., Lagani,G.D., Niu,S.Y.,
            Bertherat,F.L., Wolfe,L., Malicdan,C.M., Markello,T.C., Adams,D.R.,
            Gahl,W.A., Cheng,C.S., Beffert,U. and Ho,A.
  TITLE     FOXR1 regulates stress response pathways and is necessary for
            proper brain development
  JOURNAL   PLoS Genet 17 (11), e1009854 (2021)
   PUBMED   34723967
  REMARK    GeneRIF: FOXR1 regulates stress response pathways and is necessary
            for proper brain development.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 1101)
  AUTHORS   Haenig,C., Atias,N., Taylor,A.K., Mazza,A., Schaefer,M.H., Russ,J.,
            Riechers,S.P., Jain,S., Coughlin,M., Fontaine,J.F., Freibaum,B.D.,
            Brusendorf,L., Zenkner,M., Porras,P., Stroedicke,M., Schnoegl,S.,
            Arnsburg,K., Boeddrich,A., Pigazzini,L., Heutink,P., Taylor,J.P.,
            Kirstein,J., Andrade-Navarro,M.A., Sharan,R. and Wanker,E.E.
  TITLE     Interactome Mapping Provides a Network of Neurodegenerative Disease
            Proteins and Uncovers Widespread Protein Aggregation in Affected
            Brains
  JOURNAL   Cell Rep 32 (7), 108050 (2020)
   PUBMED   32814053
REFERENCE   3  (bases 1 to 1101)
  AUTHORS   Luck,K., Kim,D.K., Lambourne,L., Spirohn,K., Begg,B.E., Bian,W.,
            Brignall,R., Cafarelli,T., Campos-Laborie,F.J., Charloteaux,B.,
            Choi,D., Cote,A.G., Daley,M., Deimling,S., Desbuleux,A., Dricot,A.,
            Gebbia,M., Hardy,M.F., Kishore,N., Knapp,J.J., Kovacs,I.A.,
            Lemmens,I., Mee,M.W., Mellor,J.C., Pollis,C., Pons,C.,
            Richardson,A.D., Schlabach,S., Teeking,B., Yadav,A., Babor,M.,
            Balcha,D., Basha,O., Bowman-Colin,C., Chin,S.F., Choi,S.G.,
            Colabella,C., Coppin,G., D'Amata,C., De Ridder,D., De Rouck,S.,
            Duran-Frigola,M., Ennajdaoui,H., Goebels,F., Goehring,L., Gopal,A.,
            Haddad,G., Hatchi,E., Helmy,M., Jacob,Y., Kassa,Y., Landini,S.,
            Li,R., van Lieshout,N., MacWilliams,A., Markey,D., Paulson,J.N.,
            Rangarajan,S., Rasla,J., Rayhan,A., Rolland,T., San-Miguel,A.,
            Shen,Y., Sheykhkarimli,D., Sheynkman,G.M., Simonovsky,E., Tasan,M.,
            Tejeda,A., Tropepe,V., Twizere,J.C., Wang,Y., Weatheritt,R.J.,
            Weile,J., Xia,Y., Yang,X., Yeger-Lotem,E., Zhong,Q., Aloy,P.,
            Bader,G.D., De Las Rivas,J., Gaudet,S., Hao,T., Rak,J.,
            Tavernier,J., Hill,D.E., Vidal,M., Roth,F.P. and Calderwood,M.A.
  TITLE     A reference map of the human binary protein interactome
  JOURNAL   Nature 580 (7803), 402-408 (2020)
   PUBMED   32296183
REFERENCE   4  (bases 1 to 1101)
  AUTHORS   Fragoza,R., Das,J., Wierbowski,S.D., Liang,J., Tran,T.N., Liang,S.,
            Beltran,J.F., Rivera-Erick,C.A., Ye,K., Wang,T.Y., Yao,L., Mort,M.,
            Stenson,P.D., Cooper,D.N., Wei,X., Keinan,A., Schimenti,J.C.,
            Clark,A.G. and Yu,H.
  TITLE     Extensive disruption of protein interactions by genetic variants
            across the allele frequency spectrum in human populations
  JOURNAL   Nat Commun 10 (1), 4141 (2019)
   PUBMED   31515488
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 1101)
  AUTHORS   Pommerenke,C., Hauer,V., Zaborski,M., MacLeod,R.A., Nagel,S.,
            Amini,R.M., Berglund,M., Geffers,R., Drexler,H.G. and Quentmeier,H.
  TITLE     Chromosome 11q23 aberrations activating FOXR1 in B-cell lymphoma
  JOURNAL   Blood Cancer J 6 (6), e433 (2016)
   PUBMED   27284737
  REMARK    GeneRIF: FOXR1 expression is activated by chromosome 11q23
            aberrations in B-cell lymphoma.
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 1101)
  AUTHORS   Santo,E.E., Ebus,M.E., Koster,J., Schulte,J.H., Lakeman,A., van
            Sluis,P., Vermeulen,J., Gisselsson,D., Ora,I., Lindner,S.,
            Buckley,P.G., Stallings,R.L., Vandesompele,J., Eggert,A.,
            Caron,H.N., Versteeg,R. and Molenaar,J.J.
  TITLE     Oncogenic activation of FOXR1 by 11q23 intrachromosomal
            deletion-fusions in neuroblastoma
  JOURNAL   Oncogene 31 (12), 1571-1581 (2012)
   PUBMED   21860421
  REMARK    GeneRIF: FOXR1 is recurrently activated in neuroblastoma by
            intrachromosomal deletion/fusion events, resulting in
            overexpression of fusion transcripts
REFERENCE   7  (bases 1 to 1101)
  AUTHORS   Vaquerizas,J.M., Kummerfeld,S.K., Teichmann,S.A. and Luscombe,N.M.
  TITLE     A census of human transcription factors: function, expression and
            evolution
  JOURNAL   Nat Rev Genet 10 (4), 252-263 (2009)
   PUBMED   19274049
  REMARK    Review article
REFERENCE   8  (bases 1 to 1101)
  AUTHORS   Katoh,M. and Katoh,M.
  TITLE     Human FOX gene family (Review)
  JOURNAL   Int J Oncol 25 (5), 1495-1500 (2004)
   PUBMED   15492844
  REMARK    Review article
REFERENCE   9  (bases 1 to 1101)
  AUTHORS   Katoh,M. and Katoh,M.
  TITLE     Identification and characterization of human FOXN5 and rat Foxn5
            genes in silico
  JOURNAL   Int J Oncol 24 (5), 1339-1344 (2004)
   PUBMED   15067358
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AB094092.1, BC038969.1 and
            AP003392.2.
            
            On May 17, 2019 this sequence version replaced NM_181721.2.
            
            Summary: This gene encodes a member of the forkhead box (FOX)
            family of transcription factors. FOX family members are monomeric,
            helix-turn-helix proteins with a core DNA-binding domain of
            approximately 110 aa. Many FOX transcription factors play roles in
            determining cell fates during early development. This forkhead box
            protein lacks the C-terminal basic region found in many other FOX
            family members. It is located within the 11q23.3 region which is
            commonly deleted in neuroblastomas. [provided by RefSeq, Jul 2008].
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC028191.1, AB094092.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1968968, SAMEA2148093
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000317011.8/ ENSP00000314806.3
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-1021              AB094092.1         55-1075
            1022-1099           BC038969.1         951-1028
            1100-1101           AP003392.2         72351-72352
FEATURES             Location/Qualifiers
     source          1..1101
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="11"
                     /map="11q23.3"
     gene            1..1101
                     /gene="FOXR1"
                     /gene_synonym="DLNB13; FOXN5"
                     /note="forkhead box R1"
                     /db_xref="GeneID:283150"
                     /db_xref="HGNC:HGNC:29980"
                     /db_xref="MIM:615755"
     exon            1..232
                     /gene="FOXR1"
                     /gene_synonym="DLNB13; FOXN5"
                     /inference="alignment:Splign:2.1.0"
     CDS             172..1050
                     /gene="FOXR1"
                     /gene_synonym="DLNB13; FOXN5"
                     /note="forkhead box protein N5"
                     /codon_start=1
                     /product="forkhead box protein R1"
                     /protein_id="NP_859072.1"
                     /db_xref="CCDS:CCDS31688.1"
                     /db_xref="GeneID:283150"
                     /db_xref="HGNC:HGNC:29980"
                     /db_xref="MIM:615755"
                     /translation="MGNELFLAFTTSHLPLAEQKLARYKLRIVKPPKLPLEKKPNPDK
                     DGPDYEPNLWMWVNPNIVYPPGKLEVSGRRKREDLTSTLPSSQPPQKEEDASCSEAAG
                     VESLSQSSSKRSPPRKRFAFSPSTWELTEEEEAEDQEDSSSMALPSPHKRAPLQSRRL
                     RQASSQAGRLWSRPPLNYFHLIALALRNSSPCGLNVQQIYSFTRKHFPFFRTAPEGWK
                     NTVRHNLCFRDSFEKVPVSMQGGASTRPRSCLWKLTEEGHRRFAEEARALASTRLESI
                     QQCMSQPDVMPFLFDL"
     exon            233..307
                     /gene="FOXR1"
                     /gene_synonym="DLNB13; FOXN5"
                     /inference="alignment:Splign:2.1.0"
     exon            308..555
                     /gene="FOXR1"
                     /gene_synonym="DLNB13; FOXN5"
                     /inference="alignment:Splign:2.1.0"
     exon            556..782
                     /gene="FOXR1"
                     /gene_synonym="DLNB13; FOXN5"
                     /inference="alignment:Splign:2.1.0"
     exon            783..1021
                     /gene="FOXR1"
                     /gene_synonym="DLNB13; FOXN5"
                     /inference="alignment:Splign:2.1.0"
     exon            1022..1101
                     /gene="FOXR1"
                     /gene_synonym="DLNB13; FOXN5"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1081..1086
                     /regulatory_class="polyA_signal_sequence"
                     /gene="FOXR1"
                     /gene_synonym="DLNB13; FOXN5"
                     /note="hexamer: ATTAAA"
     polyA_site      1101
                     /gene="FOXR1"
                     /gene_synonym="DLNB13; FOXN5"
                     /note="major polyA site"
ORIGIN      
        1 gcatttgaga aggcgcctgt gagggtcgct cctcagccgc cgcgctccca ctccgcgtcc
       61 ccactccgcg ccgccgcgcc tctgccagcc ccgaaggtgg acgtgaagct ccaacacctc
      121 gacttctggg cccgcctcca tggccaggtc ccgggactgc tggactggga catggggaac
      181 gagctctttc tggccttcac cacatctcac ctccccttag cggagcagaa acttgccagg
      241 tataaactcc gaattgttaa gccaccaaaa ttacccctag agaaaaaacc caaccctgat
      301 aaggatggtc cagattatga gcccaacctc tggatgtggg taaatcccaa cattgtgtat
      361 ccccctggaa agctggaggt ctcaggacgt aggaagaggg aggacctgac aagcacactc
      421 ccctcctctc agccacccca gaaggaggaa gatgccagct gctcagaggc cgcaggggtg
      481 gaatcactgt cccagtcctc cagcaagcgg tctccccctc ggaagcggtt tgccttttcc
      541 cccagcacct gggagctcac agaagaggag gaggctgagg accaggaaga cagctcctct
      601 atggctctcc catcccctca caaaagggcc cccctccaga gtcggaggct tcggcaagcc
      661 agcagccagg cggggaggct ctggtcccgg ccccctctca attacttcca cctaattgcc
      721 ctggcattaa gaaacagttc cccctgtggc ctcaacgtgc aacagatcta cagtttcact
      781 cgaaagcact tccccttttt ccggacggcc ccggaaggct ggaagaatac tgtccgtcac
      841 aatctctgtt ttcgagacag ctttgagaaa gtgcctgtca gcatgcaggg cggggccagc
      901 acacggcctc gatcttgcct ctggaagttg accgaggagg gacaccgccg ctttgcggag
      961 gaggcccgcg ccttggcttc cactcggcta gaaagtatcc aacagtgcat gagccagcca
     1021 gatgtgatgc ccttcctctt tgatctttaa ccccaagaag caacagccag ctaatgcttt
     1081 attaaaatta ccctcactag c
//
