Gene Networks Database

LOCUS       Rr_SPSM50     320 bp    DNA             INV       18-MAR-1998
DEFINITION  Strongylocentrotus purpuratus spicule matrix SM50 protein
            (SM50) gene regulatory region.
KEYWORDS
SOURCE      purple urchin.
  ORGANISM  Strongylocentrotus purpuratus
            Eukaryotae; mitochondrial eukaryotes; Metazoa; Echinodermata;
            Echinozoa; Echinoidea; Euechinoidea; Echinacea; Echinoida;
            Strongylocentrotidae; Strongylocentrotus.
REFERENCE   1  (bases 1 to 320)
  AUTHORS   Makabe,K.W., Kirchhamer,C.V., Britten,R.J., and Davidson,E.H.
    TITLE   Cis-regulatory control of the SM50 gene, an early marker of
            skeletogenic lineage specification in the sea urchin embryo
  JOURNAL   Development 121, 1957-1970 (1995)
  MEDLINE   95361751
REFERENCE   2
  AUTHORS   Hoog,C., Calzone,F.J., Cutting,A.E., Britten,R.J.,Davidson,E.H.
    TITLE   Gene regulatory factors of the sea urchin embryo. II. Two
            dissimilar proteins, P3A1 and P3A2, bind to the same target
            sites that are required for early temporal gene expression
  JOURNAL   Development 112, 351-364 (1991)
  MEDLINE   92120113
REFERENCE   3
  AUTHORS   Raman,V., Andrews,M.E., Harkey,M.A. and Raff,R.A.
    TITLE   Protein-DNA interactions at putative regulatory regions 
            of two coordinately expressed genes, msp130 and PM27, during
            skeletogenesis in sea urchin embryos.
   JOURNAL  Int. J. Dev. Biol. 37, 499-507 (1993)
   MEDLINE  8179994 
REFERENCE   4
  AUTHORS   Kurokawa,D., Kitajima,T., Mitsunaga-Nakatsubo,K., Amemiya,S.,
            Shimada,H. and Akasaka.K.
     TITLE  HpEst, an est-related transcription factor implicated in
            primary mesenchyme cell differentiation in the sea urchin embryo.
  JOURNAL   Mech. Dev. 80, 41-52 (1999)
  MEDLINE   10096062
REMARK      GeNet staff at the IHC&DB created this entry from the original
            journal article. This sequence comes from Fig. 3A
COMMENTS    Cis-regulatory region extending 440 bp upstream and 120 bp
            downstream of the transcription start site confer accurate
            skeletogenic expression of injected expression vector. The
            distal portion of this fragment contains elements controlling
            amplitude of expression, while the region from -200 to +105
            (1 - 305 this entry) contains spatial control elements that
            position expression accurately in the sceletogenic lineages
            of the embryo. A systematic mutagenesis of this region [1] reveals
            four positively acting regulatory elements: 2 copies of element
            D as well as elements A and C. The element C, named as locator
            element exercises the primary spatial control function. It
            requires other separable, positive regulatory elements for
            activity. In the normal configuration this ancillary positive
            function is mediated by elements A and D.
            Comparison [3] of the SM50 promoter to PM27 promoter and 850-bp 
            region of msp130 gene located between exons 6 and 7 revealed 
            three larger sequence elements (designated A, B and C) that 
            are strictly similar in these genes. The A and C elements 
            identified in [3] are not identical to A and C identified 
            in [1]. The ets binding site functions as a positive 
            cis-regulatory element [4].
FEATURES             Location/Qualifiers
     source          1..562
                     /organism="Strongylocentrotus purpuratus"
                     /db_xref="taxon:7668"
     prot_bind       330..337
                     /citation=[2]
                     /bound_moiety="SpP3A2 and SpZ2-1"
                     /evidence=DNAase I footprinting
     prot_bind       317..324
                     /citation=[2]
                     /bound_moiety="SpP3A2 and SpZ2-1"
                     /evidence=DNAase I footprinting
     mRNA            443..562
     element D       395..400
                     /evidence=experimental
                     /citation=[1]
     element D       415..420
                     /evidence=experimental
                     /citation=[1]
     element C       455..479
                     /evidence=experimental
                     /citation=[1]
     element A       503..545
                     /evidence=experimental
                     /citation=[1]
     element A       113..140
                     /evidence=sequence inspection
                     /citation=[3]
     misc_feature    168..180
                     /note="ets binding site"
                     /evidence=sequence inspection 
                     /evidence=luciferase assays                           
                     /citation=[4]       
     element B       281..299
                     /evidence=sequence inspection
                     /citation=[3]  
     element C       418..431
                     /evidence=sequence inspection
                     /citation=[3]
     CDS             552..
ORIGIN
        1 CAACGGATCT GCCGTGGAAA ATAACTAGGC ATATCTTGAC ACGCATAAGG AACGTTACTT
       61 TGGAGGCCCC TTCGCTCCCC CAACACCGTC CCGCGCACAC GATCTTCGCG TGTACTCCCT
      121 ATACACACGT TCACCCACAT TTAGCCCACG CACACACTCA TTCCCAACCA GGAAGTCACG
      181 CTCATTATGG GTAATTATGC GCTCATCCCA AAGCCCCTGA CTCAAGTTTC CCTTTCGGAA
      241 CCCCGGCTAG GTCTGGATGT GCGTCAATCC TACCATCTCC TCTGATTGGT CCAAAAGTTA
      301 CGCCCCGTTT TCGGCTTCTG CGCACACCCC ACGCGCATGG GGCGTGCACG GAGATGCGTT
      361 GGTCACGCCC CCATCAGAGT CTTGCACTCG GCCCAGGGTT ACGCCTGTTG CGCGAGGGTT 
      421 TTGAGGTTCG GCTAAGGCTT TCATTCGAGT TTGGTGGTAG TCGTGAATGC ATCGATCTCA
      481 TTTCTTCTGG AGTTCGAAAA ATTAAGAAAG AAAAAAGTCT AGTGAGATCG CAACACATTT
      541 GAGAAGCAGC CATGAAGGGA GT
//