LOCUS       NM_001289828            2220 bp    mRNA    linear   ROD 11-MAR-2025
DEFINITION  Mus musculus Nanog homeobox (Nanog), transcript variant 2, mRNA.
ACCESSION   NM_001289828 XM_006506652
VERSION     NM_001289828.1
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 2220)
  AUTHORS   Geiselmann,A., Micouin,A., Vandormael-Pournin,S., Laville,V.,
            Chervova,A., Mella,S., Navarro,P. and Cohen-Tannoudji,M.
  TITLE     PI3K/AKT signaling controls ICM maturation and proper epiblast and
            primitive endoderm specification in mice
  JOURNAL   Dev Cell 60 (2), 204-219 (2025)
   PUBMED   39461340
REFERENCE   2  (bases 1 to 2220)
  AUTHORS   Hirono,N., Hashimoto,M., Shimojo,H. and Sasaki,H.
  TITLE     Fate specification triggers a positive feedback loop of TEAD-YAP
            and NANOG to promote epiblast formation in preimplantation embryos
  JOURNAL   Development 152 (1) (2025)
   PUBMED   39629521
REFERENCE   3  (bases 1 to 2220)
  AUTHORS   Weberling,A., Siriwardena,D., Penfold,C., Christodoulou,N.,
            Boroviak,T.E. and Zernicka-Goetz,M.
  TITLE     Primitive to visceral endoderm maturation is essential for mouse
            epiblast survival beyond implantation
  JOURNAL   iScience 28 (1), 111671 (2024)
   PUBMED   39868030
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 2220)
  AUTHORS   Festuccia,N., Vandormael-Pournin,S., Chervova,A., Geiselmann,A.,
            Langa-Vives,F., Coux,R.X., Gonzalez,I., Collet,G.G.,
            Cohen-Tannoudji,M. and Navarro,P.
  TITLE     Nr5a2 is dispensable for zygotic genome activation but essential
            for morula development
  JOURNAL   Science 386 (6717), eadg7325 (2024)
   PUBMED   39361745
REFERENCE   5  (bases 1 to 2220)
  AUTHORS   Chen,R., Fan,R., Chen,F., Govindasamy,N., Brinkmann,H.,
            Stehling,M., Adams,R.H., Jeong,H.W. and Bedzhov,I.
  TITLE     Analyzing embryo dormancy at single-cell resolution reveals dynamic
            transcriptional responses and activation of integrin-Yap/Taz
            prosurvival signaling
  JOURNAL   Cell Stem Cell 31 (9), 1262-1279 (2024)
   PUBMED   39047740
REFERENCE   6  (bases 1 to 2220)
  AUTHORS   Pan,G.J. and Pei,D.Q.
  TITLE     Identification of two distinct transactivation domains in the
            pluripotency sustaining factor nanog
  JOURNAL   Cell Res 13 (6), 499-502 (2003)
   PUBMED   14728807
REFERENCE   7  (bases 1 to 2220)
  AUTHORS   Morkel,M., Huelsken,J., Wakamiya,M., Ding,J., van de Wetering,M.,
            Clevers,H., Taketo,M.M., Behringer,R.R., Shen,M.M. and
            Birchmeier,W.
  TITLE     Beta-catenin regulates Cripto- and Wnt3-dependent gene expression
            programs in mouse axis and mesoderm formation
  JOURNAL   Development 130 (25), 6283-6294 (2003)
   PUBMED   14623818
REFERENCE   8  (bases 1 to 2220)
  AUTHORS   Chambers,I., Colby,D., Robertson,M., Nichols,J., Lee,S., Tweedie,S.
            and Smith,A.
  TITLE     Functional expression cloning of Nanog, a pluripotency sustaining
            factor in embryonic stem cells
  JOURNAL   Cell 113 (5), 643-655 (2003)
   PUBMED   12787505
  REMARK    GeneRIF: Nanog is a homeodomain protein whose enhanced expression
            confers constitutive self-renewal on ES cells. Forced expression of
            Nanog liberates ES cells from the requirement for gp130
            stimulation.
REFERENCE   9  (bases 1 to 2220)
  AUTHORS   Mitsui,K., Tokuzawa,Y., Itoh,H., Segawa,K., Murakami,M.,
            Takahashi,K., Maruyama,M., Maeda,M. and Yamanaka,S.
  TITLE     The homeoprotein Nanog is required for maintenance of pluripotency
            in mouse epiblast and ES cells
  JOURNAL   Cell 113 (5), 631-642 (2003)
   PUBMED   12787504
REFERENCE   10 (bases 1 to 2220)
  AUTHORS   Wang,S.H., Tsai,M.S., Chiang,M.F. and Li,H.
  TITLE     A novel NK-type homeobox gene, ENK (early embryo specific NK),
            preferentially expressed in embryonic stem cells
  JOURNAL   Gene Expr Patterns 3 (1), 99-103 (2003)
   PUBMED   12609610
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AY455285.1, BC144995.1,
            AK167259.1, AY455282.1 and BY382803.1.
            
            On Jan 31, 2014 this sequence version replaced XM_006506652.1.
            
            Summary: The protein encoded by this gene is a DNA binding homeobox
            transcription factor involved in embryonic stem (ES) cell
            proliferation, renewal, and pluripotency. The encoded protein can
            block ES cell differentiation and can also autorepress its own
            expression in differentiating cells. Several transcript variants
            encoding different isoforms have been found for this gene.
            [provided by RefSeq, Sep 2015].
            
            Transcript Variant: This variant (2) uses an alternate in-frame
            splice site in the 3' coding region, compared to variant 1. It
            encodes isoform 2, which is shorter than 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 :: BC144995.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164134, SAMN01164138
                                           [ECO:0000348]
            ##Evidence-Data-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-3                 AY455285.1         1-3
            4-1356              BC144995.1         1-1353
            1357-1430           AK167259.1         1332-1405
            1431-2210           AY455282.1         1215-1994
            2211-2220           BY382803.1         429-438
FEATURES             Location/Qualifiers
     source          1..2220
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="6"
                     /map="6 57.8 cM"
     gene            1..2220
                     /gene="Nanog"
                     /gene_synonym="2410002E02Rik; ecat4; ENK; Stm1"
                     /note="Nanog homeobox"
                     /db_xref="GeneID:71950"
                     /db_xref="MGI:MGI:1919200"
     exon            1..369
                     /gene="Nanog"
                     /gene_synonym="2410002E02Rik; ecat4; ENK; Stm1"
                     /inference="alignment:Splign:2.1.0"
     CDS             219..1133
                     /gene="Nanog"
                     /gene_synonym="2410002E02Rik; ecat4; ENK; Stm1"
                     /note="isoform 2 is encoded by transcript variant 2; early
                     embryo specific expression NK family; homeobox protein
                     NANOG; homeobox transcription factor Nanog; ES
                     cell-associated protein 4; early embryo specific
                     expression NK-type homeobox protein"
                     /codon_start=1
                     /product="homeobox protein NANOG isoform 2"
                     /protein_id="NP_001276757.1"
                     /db_xref="GeneID:71950"
                     /db_xref="MGI:MGI:1919200"
                     /translation="MSVGLPGPHSLPSSEEASNSGNASSMPAVFHPENYSCLQGSATE
                     MLCTEAASPRPSSEDLPLQGSPDSSTSPKQKLSSPEADKGPEEEENKVLARKQKMRTV
                     FSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQVKTWFQNQRMKCKRWQKNQWL
                     KTSNGLIQGSAPVEYPSIHCSYPQGYLVNASGSLSMWGSQTWTNPTWSSQTWTNPTWN
                     NQTWTNPTWSSQAWTAQSWNGQPWNAAPLHNFGEDFLQPYVQLQQNFSASDLEVNLEA
                     TRESHAHFSTPQALELFLNYSVTPPGEI"
     exon            370..635
                     /gene="Nanog"
                     /gene_synonym="2410002E02Rik; ecat4; ENK; Stm1"
                     /inference="alignment:Splign:2.1.0"
     exon            636..722
                     /gene="Nanog"
                     /gene_synonym="2410002E02Rik; ecat4; ENK; Stm1"
                     /inference="alignment:Splign:2.1.0"
     exon            723..2211
                     /gene="Nanog"
                     /gene_synonym="2410002E02Rik; ecat4; ENK; Stm1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2188..2193
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Nanog"
                     /gene_synonym="2410002E02Rik; ecat4; ENK; Stm1"
                     /note="hexamer: AATAAA"
     polyA_site      2211
                     /gene="Nanog"
                     /gene_synonym="2410002E02Rik; ecat4; ENK; Stm1"
                     /note="major polyA site"
ORIGIN      
        1 aaatctatcg ccttgagccg ttggccttca gataggctga tttggttggt gtcttgctct
       61 ttctgtggga aggctgcggc tcacttcctt ctgacttctt gataattttg cattagacat
      121 ttaactcttc tttctatgat ctttccttct agacactgag ttttttggtt gttgcctaaa
      181 accttttcag aaatcccttc cctcgccatc acactgacat gagtgtgggt cttcctggtc
      241 cccacagttt gcctagttct gaggaagcat cgaattctgg gaacgcctca tcaatgcctg
      301 cagtttttca tcccgagaac tattcttgct tacaagggtc tgctactgag atgctctgca
      361 cagaggctgc ctctcctcgc ccttcctctg aagacctgcc tcttcaaggc agccctgatt
      421 cttctaccag tcccaaacaa aagctctcaa gtcctgaggc tgacaagggc cctgaggagg
      481 aggagaacaa ggtccttgcc aggaagcaga agatgcggac tgtgttctct caggcccagc
      541 tgtgtgcact caaggacagg tttcagaagc agaagtacct cagcctccag cagatgcaag
      601 aactctcctc cattctgaac ctgagctata agcaggttaa gacctggttt caaaaccaaa
      661 ggatgaagtg caagcggtgg cagaaaaacc agtggttgaa gactagcaat ggtctgattc
      721 agggctcagc accagtggag tatcccagca tccattgcag ctatccccag ggctatctgg
      781 tgaacgcatc tggaagcctt tccatgtggg gcagccagac ttggaccaac ccaacttgga
      841 gcagccagac ctggaccaac ccaacttgga acaaccagac ctggaccaac ccaacttgga
      901 gcagccaggc ctggaccgct cagtcctgga acggccagcc ttggaatgct gctccgctcc
      961 ataacttcgg ggaggacttt ctgcagcctt acgtacagtt gcagcaaaac ttctctgcca
     1021 gtgatttgga ggtgaatttg gaagccacta gggaaagcca tgcgcatttt agcaccccac
     1081 aagccttgga attattcctg aactactctg tgactccacc aggtgaaata tgagacttac
     1141 gcaacatctg ggcttaaagt cagggcaaag ccaggttcct tccttcttcc aaatattttc
     1201 atattttttt taaagattta tttattcatt atatgtaagt acactgtagc tgtcttcaga
     1261 cactccagaa gagggcgtca gatcttgtta cgtatggttg tgagccacca tgtggttgct
     1321 gggatttgaa ctcctgacct tcggaagagc agtcgggtgc tcttatccac tgagccatct
     1381 caccagcccc tggtttattt ttttaattat tatttgcttt ttgtttatca agacagggtt
     1441 tctctgcata gctctaattg tctttgaact agctctgcag accagcctgg ccttgaactc
     1501 agagatctgc ccacttatct ttgcctcctg aatgctggga ccaaaggtgg cataccacca
     1561 cacctggcat atatattgtt tatttctatt tctattttta ttggtgccag agcaaaccta
     1621 ggacttagaa catgctgggc accaactcaa cttctgagct ctatttacaa cttggtgtgt
     1681 tagtgtattt gtcttagttc tgaatttgtc ctttttttag tgttaactct aggctttgga
     1741 gacagtgagg tgcatatact ctctccttcc caagaataag tgcttgaaca cccttaccca
     1801 cgcccaccca cccatgctag tcttttttct tagaagcgtg ggtcttggta tacactgtgt
     1861 cattttgagg ggtgaggttt aaaagtatat acaaagtata acgatatggt ggctactctc
     1921 gaggatgaga cagaaggacc aggagtttga gggtagctca gatatgcaat aagttcaagg
     1981 ccaacctgta ctatgtttaa atagtaagac agcatctcga taaaataata aaactaaagt
     2041 ctcaacaaaa taaaagcttt cacctattaa ggtgcttgct tgtccttgga gtcccccaag
     2101 agtaactgct atgttaatat ctgtagaaag atgtttatat ttgactgtac catgatgaac
     2161 cgatgccagc tggactagtt taaacaaaat aaaacactaa ttttaccttt aaaaaaaaaa
//
