LOCUS       NM_001389259            3400 bp    mRNA    linear   ROD 31-MAR-2024
DEFINITION  Rattus norvegicus forkhead box N4 (Foxn4), mRNA.
ACCESSION   NM_001389259 XM_006249493
VERSION     NM_001389259.1
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (bases 1 to 3400)
  AUTHORS   Liu,H., Kim,S.Y., Fu,Y., Wu,X., Ng,L., Swaroop,A. and Forrest,D.
  TITLE     An isoform of retinoid-related orphan receptor beta directs
            differentiation of retinal amacrine and horizontal interneurons
  JOURNAL   Nat Commun 4, 1813 (2013)
   PUBMED   23652001
REFERENCE   2  (bases 1 to 3400)
  AUTHORS   Luo,H., Jin,K., Xie,Z., Qiu,F., Li,S., Zou,M., Cai,L., Hozumi,K.,
            Shima,D.T. and Xiang,M.
  TITLE     Forkhead box N4 (Foxn4) activates Dll4-Notch signaling to suppress
            photoreceptor cell fates of early retinal progenitors
  JOURNAL   Proc Natl Acad Sci U S A 109 (9), E553-E562 (2012)
   PUBMED   22323600
REFERENCE   3  (bases 1 to 3400)
  AUTHORS   Lelievre,E.C., Benayoun,B.A., Mahieu,L., Roger,J.E., Sahel,J.A.,
            Sennlaub,F., Veitia,R.A., Goureau,O. and Guillonneau,X.
  TITLE     A regulatory domain is required for Foxn4 activity during
            retinogenesis
  JOURNAL   J Mol Neurosci 46 (2), 315-323 (2012)
   PUBMED   21701787
  REMARK    GeneRIF: Deletion of Foxn4 putative activation domain results in a
            complete loss of its activity during retinogenesis. Foxn4 was
            overexpressed in retinal explants at E16 & P0.
REFERENCE   4  (bases 1 to 3400)
  AUTHORS   Del Barrio,M.G., Taveira-Marques,R., Muroyama,Y., Yuk,D.I., Li,S.,
            Wines-Samuelson,M., Shen,J., Smith,H.K., Xiang,M., Rowitch,D. and
            Richardson,W.D.
  TITLE     A regulatory network involving Foxn4, Mash1 and delta-like 4/Notch1
            generates V2a and V2b spinal interneurons from a common progenitor
            pool
  JOURNAL   Development 134 (19), 3427-3436 (2007)
   PUBMED   17728344
REFERENCE   5  (bases 1 to 3400)
  AUTHORS   Li,S., Misra,K., Matise,M.P. and Xiang,M.
  TITLE     Foxn4 acts synergistically with Mash1 to specify subtype identity
            of V2 interneurons in the spinal cord
  JOURNAL   Proc Natl Acad Sci U S A 102 (30), 10688-10693 (2005)
   PUBMED   16020526
REFERENCE   6  (bases 1 to 3400)
  AUTHORS   Li,S., Mo,Z., Yang,X., Price,S.M., Shen,M.M. and Xiang,M.
  TITLE     Foxn4 controls the genesis of amacrine and horizontal cells by
            retinal progenitors
  JOURNAL   Neuron 43 (6), 795-807 (2004)
   PUBMED   15363391
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000012.1.
            
            On Dec 5, 2020 this sequence version replaced XM_006249493.2.
            
            ##Evidence-Data-START##
            RNAseq introns :: single sample supports all introns SAMN12840107,
                              SAMN12840108 [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            inferred exon combination :: based on alignments, homology
            RefSeq Select criteria    :: based on conservation, expression,
                                         longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-281               JAXUCZ010000012.1  48000257-48000537
            282-480             JAXUCZ010000012.1  48000793-48000991
            481-569             JAXUCZ010000012.1  48001514-48001602
            570-715             JAXUCZ010000012.1  48011563-48011708
            716-840             JAXUCZ010000012.1  48013337-48013461
            841-960             JAXUCZ010000012.1  48013535-48013654
            961-1088            JAXUCZ010000012.1  48013861-48013988
            1089-1185           JAXUCZ010000012.1  48014496-48014592
            1186-1393           JAXUCZ010000012.1  48015407-48015614
            1394-1786           JAXUCZ010000012.1  48017536-48017928
            1787-3400           JAXUCZ010000012.1  48018913-48020526
FEATURES             Location/Qualifiers
     source          1..3400
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="12"
                     /map="12q16"
     gene            1..3400
                     /gene="Foxn4"
                     /note="forkhead box N4"
                     /db_xref="GeneID:288736"
                     /db_xref="RGD:1306389"
     exon            1..281
                     /gene="Foxn4"
                     /inference="alignment:Splign:2.1.0"
     exon            282..480
                     /gene="Foxn4"
                     /inference="alignment:Splign:2.1.0"
     CDS             331..2049
                     /gene="Foxn4"
                     /codon_start=1
                     /product="forkhead box protein N4"
                     /protein_id="NP_001376188.1"
                     /db_xref="GeneID:288736"
                     /db_xref="RGD:1306389"
                     /translation="MLRVGQLQRGKFKNGSSCDGRPNSRQQGASAREYPCRSAARPSP
                     TQDPLQEMIESDIQSKMSGMIRSSGHSHHRSPQEYRFLPPAGDDDLPGDLQSLSWLTA
                     VDVPRLQQMASGRIDLGSPSVPHPHPGAMAGVADPHVGAAPRPMLRSQTAMVPRGMLG
                     LSPIGSYRASAEQMNQFPVGGQSSSGLQEMPQLYSPATQIQFPLPSGSQQCPPTSLYG
                     SPFAARPPYPQAHVTVHSPQEAHPKHYPKPIYSYSCLIAMALKSSKTGSLPVSEIYSF
                     MKEHFPYFKTAPDGWKNSVRHNLSLNKCFEKVETKPSGSSRKGCLWALNLARIDKVEE
                     EMHKWKRKDLAAIHRSMANPEELDKLISDRPESCRRPGKQGEPEVPVLTRATTVAMTH
                     SCLAISQLPPKPLMTLSLQSVPLHHQVQPQAHLAPDSPAPAQTPPLHALPNLSPGPLP
                     QPAVGRVPGDFLNISTDTNTEVDALDPSIMDFALQGNLWEEMREESFSLDTLGAFGDS
                     PLGCDLGTPSLTPVSGSGDQPFPDVQVTGLYAAYSTVTADSVAPSVVNSAQYLGTPGN
                     KPIALL"
     exon            481..569
                     /gene="Foxn4"
                     /inference="alignment:Splign:2.1.0"
     exon            570..715
                     /gene="Foxn4"
                     /inference="alignment:Splign:2.1.0"
     exon            716..840
                     /gene="Foxn4"
                     /inference="alignment:Splign:2.1.0"
     exon            841..960
                     /gene="Foxn4"
                     /inference="alignment:Splign:2.1.0"
     exon            961..1088
                     /gene="Foxn4"
                     /inference="alignment:Splign:2.1.0"
     exon            1089..1185
                     /gene="Foxn4"
                     /inference="alignment:Splign:2.1.0"
     exon            1186..1393
                     /gene="Foxn4"
                     /inference="alignment:Splign:2.1.0"
     exon            1394..1786
                     /gene="Foxn4"
                     /inference="alignment:Splign:2.1.0"
     exon            1787..3400
                     /gene="Foxn4"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 ttgaccactg gagcgagctg cagagcgagg tgtggagttg cggagcccta tcctgggcgg
       61 ccggcgctgc gcgccacctt tcccgcggcg agagcggggg cggagccggg agcaacgcgg
      121 gagcccgggc gggtcacggt ccccaacggc ctgcagcatc cagggcggca ggcccctgcc
      181 gcagccgcgc tcccctcggc gctcccggac cctggcgtgg gccccctgcg tggcgtgggc
      241 tcaactttct cggagccaca ggtggccccg gagccttccc gggaaaagga ggggaaagga
      301 ccccccaaca acccggcacg cctactgcgc atgctcagag ttggacagct ccagagaggg
      361 aaatttaaaa acggttcgag ctgcgacggg cggccaaatt ccagacagca aggggcgagc
      421 gcaagggaat acccctgccg cagcgccgcc cgcccctcgc caacccagga cccgctccag
      481 gaaatgatag aaagtgacat ccagtccaaa atgtcaggaa tgatcagaag ctccgggcac
      541 agccaccacc gctctccaca ggaatacagg ttcctgcctc ccgcgggtga tgacgacctc
      601 cctggggacc ttcagtcact gtcatggctc acagccgtgg acgtgcctcg actgcagcag
      661 atggcaagtg ggaggataga cttgggcagc cccagtgtac cacatccaca cccaggtgcc
      721 atggctgggg tggcagaccc gcacgtgggt gcagccccac gtcccatgct ccgtagccag
      781 accgcgatgg tccccagagg catgctgggc ttgagcccca taggcagcta cagagccagc
      841 gccgagcaga tgaaccagtt ccccgtagga gggcagtcat catcgggcct gcaggaaatg
      901 ccacagctgt actctccggc tacccaaatc cagttccctc tgccttccgg ttcccagcag
      961 tgtcctccca ccagcctcta tggctctcca ttcgcagccc ggcctcccta cccgcaggcc
     1021 cacgtgactg tgcattcacc tcaagaggca caccccaaac actaccccaa gcccatctac
     1081 tcctacagct gtctgatcgc catggctttg aagagtagca agacaggcag cctgcccgtg
     1141 agtgagatct acagcttcat gaaggagcac ttcccctact tcaagacagc acctgacggc
     1201 tggaagaact cagtgagaca caacctgtcc ctgaacaagt gctttgagaa ggtggaaacc
     1261 aagcccagtg gctcctcgcg caagggctgc ctgtgggccc tgaacctggc gcgcatcgac
     1321 aaggtggagg aggagatgca caagtggaag aggaaggacc tcgccgccat acaccgcagc
     1381 atggccaacc ctgaggagtt agacaagctc atctcagacc gcccagaaag ctgccggcgt
     1441 cctggaaaac aaggggagcc tgaggtccct gtgctgaccc gcgccacgac ggtggccatg
     1501 acccacagct gcctggccat ctcccaactc ccacctaagc cactgatgac cctgtccctg
     1561 cagtcggtcc ctctgcacca ccaggtccag ccccaggcac atctggcccc cgactcccca
     1621 gcaccggccc agaccccacc tcttcatgcc ctacccaatc tcagcccggg gcctctcccc
     1681 cagccagccg tgggtagggt tcctggggac ttcctcaaca tcagcactga cacgaacaca
     1741 gaggtggacg ccctggaccc cagcatcatg gacttcgctc tacagggtaa cctgtgggaa
     1801 gagatgaggg aggaaagctt cagcctggac acgctggggg ccttcggaga ctccccactt
     1861 ggctgtgacc tgggaacccc aagcctgacc cctgtctctg gcagcggtga ccagcccttt
     1921 ccagatgtgc aggtgacagg tctctatgcg gcctattcca ctgtcacagc agacagtgtg
     1981 gccccatccg tggtcaactc tgcacagtac ctgggaactc cggggaacaa gcccattgct
     2041 ctgctttgag gtgctggcct agaagaaagg cgcttcggct aaacagtgtc tctagccgat
     2101 ggctgacagg aaaatgacag cttgcggctc ctcctgttcc ccaacatgct accgcaggac
     2161 actcccgggg cacccaagcc agaagcacga gagaagcgca agccctccgc ctccccatct
     2221 tctgcagggc ctgagacagg catggcggtg gtgagacctg actcttttta agcttggcac
     2281 ctggcagagc ctggacgacc agcagcccat cttgggacac agtcgtgtgt cacagagaca
     2341 ctggagggaa agctctgagc acacacattc tcccaggaga ggaacttctg tgcctcagag
     2401 catggcctaa ggctggaaaa aggcctggtc agccttggac ctgcctcaga agtgacatgg
     2461 ctggcctgga tcacagccca ctgctcctag agtttccaga gccgtgttgt cgagactgtg
     2521 tgtaaattta tttatattta ttgtgattcc agcgactgag atccctagaa tgaggctctc
     2581 ggcagactcc ccacagctca gcaagcctaa ctccctagtg gccccaatca catctccagc
     2641 ctgctcagac agtcctcagc cccagcccat tattcagaga atgagcaagc acttttgcta
     2701 actggaaagc gccctgtcat tttccgataa ggacaggtct ttttcttggg gtttaattat
     2761 gactcacgtc tactcctggg gatgcacaga ggggaggtac tgtagcatcg agtttgaaga
     2821 gattttctct gaggcctgcg gggttgagac aggaggaaag ggcagagacc tatctgtggc
     2881 aggaagatgt gaaccttggg ccctgagcgc ccatcacccc ttgaagcacc acagtgtgga
     2941 ataccgttgg cgccgcctgc ctcttctgct atatctggtc ttatactacc ctcttgtccc
     3001 gtgactgatt tttccaagtg agggttctgc aggcaggtgg gcccattggg gagcaggggg
     3061 gaggggcccc ctccacctgc tcttttccac cttgatatct gacctgccca tctgagagtt
     3121 cacaccctag ggtgttcaga agatccggcg ggcaggctgg ctggctggct gtgagggcag
     3181 tgtgaagcct agtcctcaag ggccatcttt caggccttcc caccgagtcg ggggcaaccc
     3241 cgtctctaga ccggcgcggc ccagcccatc cggccagcct tgctcagctg ctgtgtgccc
     3301 cactttcgaa aagttctgcc gtttaagtgt gaaggcagtg ccaagactct gtagctgtag
     3361 tattgattaa ctgtctactg tcaataaagg ttaaacagca
//
