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Mus musculus SIX homeobox 3, opposite strand 1 (Six3os1), transcript variant 3, long non-coding RNA

NCBI Reference Sequence: NR_015386.2

FASTA Graphics 

LOCUS       NR_015386               3311 bp    RNA     linear   ROD 17-SEP-2024
DEFINITION  Mus musculus SIX homeobox 3, opposite strand 1 (Six3os1),
            transcript variant 3, long non-coding RNA.
ACCESSION   NR_015386
VERSION     NR_015386.2
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 3311)
  AUTHORS   Song,X., Chen,H., Shang,Z., Du,H., Li,Z., Wen,Y., Liu,G., Qi,D.,
            You,Y., Yang,Z., Zhang,Z. and Xu,Z.
  TITLE     Homeobox Gene Six3 is Required for the Differentiation of D2-Type
            Medium Spiny Neurons
  JOURNAL   Neurosci Bull 37 (7), 985-998 (2021)
   PUBMED   34014554
REFERENCE   2  (bases 1 to 3311)
  AUTHORS   Quintana-Urzainqui,I., Kozic,Z., Mitra,S., Tian,T., Manuel,M.,
            Mason,J.O. and Price,D.J.
  TITLE     Tissue-Specific Actions of Pax6 on Proliferation and
            Differentiation Balance in Developing Forebrain Are Foxg1 Dependent
  JOURNAL   iScience 10, 171-191 (2018)
   PUBMED   30529950
REFERENCE   3  (bases 1 to 3311)
  AUTHORS   Percival,C.J., Green,R., Roseman,C.C., Gatti,D.M., Morgan,J.L.,
            Murray,S.A., Donahue,L.R., Mayeux,J.M., Pollard,K.M., Hua,K.,
            Pomp,D., Marcucio,R. and Hallgrimsson,B.
  TITLE     Developmental constraint through negative pleiotropy in the
            zygomatic arch
  JOURNAL   Evodevo 9, 3 (2018)
   PUBMED   29423138
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 3311)
  AUTHORS   Rapicavoli,N.A., Poth,E.M., Zhu,H. and Blackshaw,S.
  TITLE     The long noncoding RNA Six3OS acts in trans to regulate retinal
            development by modulating Six3 activity
  JOURNAL   Neural Dev 6, 32 (2011)
   PUBMED   21936910
  REMARK    GeneRIF: Six3OS regulates Six3 activity in developing retina by a
            mechanism via which promoter-associated long non-coding RNAs can
            modulate the activity of their associated protein coding genes
            during development.
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 3311)
  AUTHORS   Geng,X., Lavado,A., Lagutin,O.V., Liu,W. and Oliver,G.
  TITLE     Expression of Six3 Opposite Strand (Six3OS) during mouse embryonic
            development
  JOURNAL   Gene Expr Patterns 7 (3), 252-257 (2007)
   PUBMED   17084678
REFERENCE   6  (bases 1 to 3311)
  AUTHORS   Alfano,G., Vitiello,C., Caccioppoli,C., Caramico,T., Carola,A.,
            Szego,M.J., McInnes,R.R., Auricchio,A. and Banfi,S.
  TITLE     Natural antisense transcripts associated with genes involved in eye
            development
  JOURNAL   Hum Mol Genet 14 (7), 913-923 (2005)
   PUBMED   15703187
REFERENCE   7  (bases 1 to 3311)
  AUTHORS   Blackshaw,S., Harpavat,S., Trimarchi,J., Cai,L., Huang,H.,
            Kuo,W.P., Weber,G., Lee,K., Fraioli,R.E., Cho,S.H., Yung,R.,
            Asch,E., Ohno-Machado,L., Wong,W.H. and Cepko,C.L.
  TITLE     Genomic analysis of mouse retinal development
  JOURNAL   PLoS Biol 2 (9), E247 (2004)
   PUBMED   15226823
REFERENCE   8  (bases 1 to 3311)
  AUTHORS   Mu,X., Zhao,S., Pershad,R., Hsieh,T.F., Scarpa,A., Wang,S.W.,
            White,R.A., Beremand,P.D., Thomas,T.L., Gan,L. and Klein,W.H.
  TITLE     Gene expression in the developing mouse retina by EST sequencing
            and microarray analysis
  JOURNAL   Nucleic Acids Res 29 (24), 4983-4993 (2001)
   PUBMED   11812828
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AK053722.1, AY589790.1 and AC166821.2.
            
            On Apr 6, 2011 this sequence version replaced NR_015386.1.
            
            Transcript Variant: This variant (3) lacks an internal segment,
            compared to variant 1.
            
            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.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AY589790.1, BE949511.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164138, SAMN01164141
                                           [ECO:0000348]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-121               AK053722.1         3-123
            122-1140            AY589790.1         1-1019
            1141-3311           AC166821.2         67003-69173         c
FEATURES             Location/Qualifiers
     source          1..3311
                     /organism="Mus musculus"
                     /mol_type="transcribed RNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="17"
                     /map="17 55.42 cM"
     gene            1..3311
                     /gene="Six3os1"
                     /gene_synonym="D17Mgi26; E130112H22Rik; Rncr1; Six3os"
                     /note="SIX homeobox 3, opposite strand 1"
                     /db_xref="GeneID:100043902"
                     /db_xref="MGI:MGI:1925118"
     ncRNA           1..3311
                     /ncRNA_class="lncRNA"
                     /gene="Six3os1"
                     /gene_synonym="D17Mgi26; E130112H22Rik; Rncr1; Six3os"
                     /product="SIX homeobox 3, opposite strand 1, transcript
                     variant 3"
                     /db_xref="GeneID:100043902"
                     /db_xref="MGI:MGI:1925118"
     exon            1..340
                     /gene="Six3os1"
                     /gene_synonym="D17Mgi26; E130112H22Rik; Rncr1; Six3os"
                     /inference="alignment:Splign:2.1.0"
     exon            341..490
                     /gene="Six3os1"
                     /gene_synonym="D17Mgi26; E130112H22Rik; Rncr1; Six3os"
                     /inference="alignment:Splign:2.1.0"
     exon            491..3311
                     /gene="Six3os1"
                     /gene_synonym="D17Mgi26; E130112H22Rik; Rncr1; Six3os"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 aaaaccctcg ccactcatga agaactgagg caaaaggatc acagatgctg ctcggggcca
       61 gccctatact ccctccagtg cctggtctcc ggtggacccg cggggctctg cagttctctg
      121 gcggccgcgc cttgtaagcg ctaagccggg aggagggcgc aggcagggcg cacagctctg
      181 agcgcgaccc tacccggctc gggcccgcag caaccccgac tgtccgagag cctctcccca
      241 agcaaggctc tgcgccgccc tctgagccca cctcctggcc acaacgctgc ctgcgcttct
      301 ccagcccagg ccggaagccc tatgctgcct cccgaagccg gactttctgg aagcccatct
      361 tcgtatgctc accagcccac cctcctacgc tggtcagagt gagattgcta acctcaagac
      421 cccattcaat gccagctttc aactactgct gaagaccaat gtaggtcctg gaatagaaga
      481 actgcagagt atccctaagg tctcctcttc atctggcatg tgtgttcaca gaaggtacag
      541 tgtgcgagaa cacacttagg aaattttagg aacgctaacc acagtactgg aggaataaag
      601 atgtgtcgaa ggaatggatg gaatgcatga acacatacac cttgttgtcc agatgcagac
      661 aaaagctacc atgtccgctt ggagtgacgc ccagacacgc acagagatgt acaggaagcc
      721 aaggagagtg ggatccacca gagtacagta caagtacaga gtacagtgca agatgcccag
      781 tggccctgga gaaaaacctt cgttgactct tctgtatgga aagtttctga agaaagggcc
      841 aaggaatgat ctgccccaga ggctgccttt aggctcccat acctgctctg tttggagaca
      901 cccagaagag gccagtacag caaagactct ttttggtttg gttatttctg ttgcttgttg
      961 tctttttttc atcctttgcc tgggaaattg tgctctggaa tagggcttga gtagacagca
     1021 caggcctcca gtagataaca agagattctc aatctccaat gaggacattc cgttctaagg
     1081 aagcttccag ataggggaaa gccctgtttt gtcccccttt tctcctctga gatctgaaaa
     1141 aatagaaaga aaaaaaaaga aaaacaaaac aaatataaaa actatagccc aatcccatgt
     1201 acatcaaata aatccacaag gaatatgcta gatcaagcta aattatgtat ttaactcatt
     1261 ttcttttgtg agatactgag aagtcttcaa cttcctctat tccaggcagg gatcgaggac
     1321 ctggcctggc agaggttcca ccaccagggt ttcccacagt ggttctggga ctaggcgtaa
     1381 ggtgtcctga cttgttttct ctgtcacctc ttctggggaa ctggggaact gtcccagaca
     1441 atggctgccc cagttccctc tagaagagac agcccccacc cccagaaccc gttgccctcc
     1501 aacctcacct cattttctct tgagctcatt ctccgagctc ttaaagtagt aggtgtgagt
     1561 cttggaccat ttctttaaaa gaaacaacta aggaaaggga gggaggggag gagggaggag
     1621 gggagcggga aggagagcta cctcctagac taacgcgtcc aggaaccact ctctaaggag
     1681 caaaagagag cctgtgttgt aaagtagaag tgatcccccg acattgctgc agggcgcctt
     1741 gcaacagatg taactgtcca ctgaagagac agagggtggg catggggaag attttttttc
     1801 ctcccttttg tgaacagctc ttacactttt ccaagacaca ttgagttcct ggacattttt
     1861 gtgaatttgt tcttgattgt gttttgaaca ataaactgtg aaaatcaact tcaagcccac
     1921 acaatcagaa tctttcttgg gagggcaggt tctttcagcg ctgtttttct ccaggtcgct
     1981 tttatcttac ccccaatggg agtcacctgc tgatgctcct cgggaggaga ctgtaactga
     2041 aagacggaag tgaatgcaga cacagcatcc tctgagccaa accgttgctt tggttccttc
     2101 tagcttagga tgccgaacac tggctggctt tgaacaccct ctacttcgct aagaagttta
     2161 gagcctttct cacaacaaac cacagcgttt tagaactgga aatgtttctt ctgattttcc
     2221 agtcttagga caattttcga actctaactt aaaaaaaaat ttgtttatgg gggtttagct
     2281 agaacacttg tagcattcgc ttctcaagga aagatcaact gttttctcat aaccccaact
     2341 gctccacaca cttcatagga tataatgtat tttctttact tatccttgtg ccttctgccc
     2401 aggacataga actaggggca aaactttgga ggtctatgac ctcttgatag cacctgtaat
     2461 tgttaggctt ttgttcttgt gccttgtaaa tctctcatgt acgtctatga aaatatgcat
     2521 tgcatgggtg tgatcctatc aagttgtcca cactttctca acaaccactg atgagtgaaa
     2581 ccatttctat tgcccagggc aaagggctaa tcgccttgtg ggtctagagt tgtcatagga
     2641 taatatccgg tgtgtgtgtg atatgacagt tattactttc aagaataaat taaaataacc
     2701 agatacccct ttaatacttt cctcaacagc gtcaatgctc tagagatggg acctcgcctt
     2761 ccaaggtgtc ttcactatca cagggcccgg gctctctgcc tcagcccaac cctgggcttg
     2821 cgctcagaga ggaggtattc cgacggaaaa aaatcccata catttttaac tacagtgatt
     2881 actaaattaa tagcaggcac caagacagat gtcaaaacgt cttgaaaatg tttatctgtg
     2941 aataattgag aaggtagtgg gacgcattat ctgattgtgt aatgaaatat gtatgaggaa
     3001 cagctgtttg cagcagcccc ttccccttgc cgccttagcc agggcccttc tctcgcaagc
     3061 tttcttctac tttcttccac ctttttcttc cttctacttt ctagttcgct ctcttcttcc
     3121 ttaactgctc gcacggcttt ggctgcagtg aacccagagt cgcctggttc tctgatgaag
     3181 gttagccaca aggtttcctc taagccttgc tggattggcg ttccgtagtg ggatgaggct
     3241 tcgttgtctg ctgttctggc catcgcgcct tccggccagg ctgcccgctg ggtctccatg
     3301 gagtctgcgg g
//
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