LOCUS       NM_019364               2095 bp    mRNA    linear   ROD 01-JUN-2024
DEFINITION  Rattus norvegicus sec1 family domain containing 1 (Scfd1), mRNA.
ACCESSION   NM_019364
VERSION     NM_019364.1
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 2095)
  AUTHORS   Slater,L.H., Hett,E.C., Clatworthy,A.E., Mark,K.G. and Hung,D.T.
  TITLE     CCT chaperonin complex is required for efficient delivery of
            anthrax toxin into the cytosol of host cells
  JOURNAL   Proc Natl Acad Sci U S A 110 (24), 9932-9937 (2013)
   PUBMED   23716698
REFERENCE   2  (bases 1 to 2095)
  AUTHORS   Renna,M., Schaffner,C., Winslow,A.R., Menzies,F.M., Peden,A.A.,
            Floto,R.A. and Rubinsztein,D.C.
  TITLE     Autophagic substrate clearance requires activity of the syntaxin-5
            SNARE complex
  JOURNAL   J Cell Sci 124 (Pt 3), 469-482 (2011)
   PUBMED   21242315
REFERENCE   3  (bases 1 to 2095)
  AUTHORS   Laufman,O., Kedan,A., Hong,W. and Lev,S.
  TITLE     Direct interaction between the COG complex and the SM protein,
            Sly1, is required for Golgi SNARE pairing
  JOURNAL   EMBO J 28 (14), 2006-2017 (2009)
   PUBMED   19536132
REFERENCE   4  (bases 1 to 2095)
  AUTHORS   Arac,D., Dulubova,I., Pei,J., Huryeva,I., Grishin,N.V. and Rizo,J.
  TITLE     Three-dimensional structure of the rSly1 N-terminal domain reveals
            a conformational change induced by binding to syntaxin 5
  JOURNAL   J Mol Biol 346 (2), 589-601 (2005)
   PUBMED   15670607
  REMARK    GeneRIF: elucidated the structure in solution of the isolated
            N-terminal domain of rat Sly1 and analyzed its complex with an
            N-terminal peptide of rat syntaxin 5 by NMR spectroscopy
REFERENCE   5  (bases 1 to 2095)
  AUTHORS   Bando,Y., Katayama,T., Taniguchi,M., Ishibashi,T., Matsuo,N.,
            Ogawa,S. and Tohyama,M.
  TITLE     RA410/Sly1 suppresses MPP+ and 6-hydroxydopamine-induced cell death
            in SH-SY5Y cells
  JOURNAL   Neurobiol Dis 18 (1), 143-151 (2005)
   PUBMED   15649705
  REMARK    GeneRIF: These results suggest that RA410/Sly1 plays an important
            cytoprotective role in MPP+ and 6-OHDA-induced cellular
            perturbation.
REFERENCE   6  (bases 1 to 2095)
  AUTHORS   Steegmaier,M., Oorschot,V., Klumperman,J. and Scheller,R.H.
  TITLE     Syntaxin 17 is abundant in steroidogenic cells and implicated in
            smooth endoplasmic reticulum membrane dynamics
  JOURNAL   Mol Biol Cell 11 (8), 2719-2731 (2000)
   PUBMED   10930465
REFERENCE   7  (bases 1 to 2095)
  AUTHORS   Matsuo,N., Ogawa,S., Takagi,T., Wanaka,A., Mori,T., Matsuyama,T.,
            Pinsky,D.J., Stern,D.M. and Tohyama,M.
  TITLE     Cloning of a putative vesicle transport-related protein, RA410,
            from cultured rat astrocytes and its expression in ischemic rat
            brain
  JOURNAL   J Biol Chem 272 (26), 16438-16444 (1997)
   PUBMED   9195952
REFERENCE   8  (bases 1 to 2095)
  AUTHORS   Dascher,C. and Balch,W.E.
  TITLE     Mammalian Sly1 regulates syntaxin 5 function in endoplasmic
            reticulum to Golgi transport
  JOURNAL   J Biol Chem 271 (27), 15866-15869 (1996)
   PUBMED   8663406
REFERENCE   9  (bases 1 to 2095)
  AUTHORS   Peterson,M.R., Hsu,S.C. and Scheller,R.H.
  TITLE     A mammalian homologue of SLY1, a yeast gene required for transport
            from endoplasmic reticulum to Golgi
  JOURNAL   Gene 169 (2), 293-294 (1996)
   PUBMED   8647468
REFERENCE   10 (bases 1 to 2095)
  AUTHORS   Wang,G.L., Jiang,B.H., Rue,E.A. and Semenza,G.L.
  TITLE     Hypoxia-inducible factor 1 is a basic-helix-loop-helix-PAS
            heterodimer regulated by cellular O2 tension
  JOURNAL   Proc Natl Acad Sci U S A 92 (12), 5510-5514 (1995)
   PUBMED   7539918
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from D79221.1.
            
            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 :: D79221.1, U57687.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMD00132264, SAMD00132269
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
FEATURES             Location/Qualifiers
     source          1..2095
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /db_xref="taxon:10116"
                     /chromosome="6"
                     /map="6q22"
     gene            1..2095
                     /gene="Scfd1"
                     /gene_synonym="RA410; rSly1; Sly1"
                     /note="sec1 family domain containing 1"
                     /db_xref="GeneID:54350"
                     /db_xref="RGD:619828"
     exon            1..59
                     /gene="Scfd1"
                     /gene_synonym="RA410; rSly1; Sly1"
                     /inference="alignment:Splign:2.1.0"
     CDS             14..1927
                     /gene="Scfd1"
                     /gene_synonym="RA410; rSly1; Sly1"
                     /note="sly1p; syntaxin-binding protein 1-like 2; vesicle
                     transport-related protein Ra410; SLY1 homolog"
                     /codon_start=1
                     /product="sec1 family domain-containing protein 1"
                     /protein_id="NP_062237.1"
                     /db_xref="GeneID:54350"
                     /db_xref="RGD:619828"
                     /translation="MVGSKMAASIRERQTVALKRMLNFNVPHVKNSPGEPVWKVLIYD
                     RFGQDIISPLLSVKELRDMGITLHLLLHSDRDPIRDVPAVYFVMPTEENIDRLCQDLR
                     NQLYESYYLNFISAISRSKLEDIANAALAANAVTQVAKVFDQYLNFITLEEDMFVLCN
                     QNKELVSYRAINRPDITDTEMETVMDTIVDSLFCFFVTLGAVPIIRCSRGTAAEMVAV
                     KLDKKLRENLRDARNSLFTGDPLGTGQFSFQRPLLVLVDRNIDLATPLHHTWTYQALV
                     HDVLDFHLNRVNLEESTGVENSPTGARPKRKNKKSYDLTPVDKFWQKHKGSPFPEVAE
                     SVQQELESYRAQEDEVKRLKSIMGLEGEDEGAISMLSDNTAKLTSAVSSLPELLEKKR
                     LIDLHTNVATAVLEHIKARKLDVYFEYEEKIMSKTTLDKSLLDVISDPDAGTPEDKMR
                     LFLIYYISAQQAPSEVDLEQYKKALTDAGCNLSPLQYIKQWKAFAKMASTPASYGNTT
                     TKPMGLLSRVMNTGSQFVMEGVKNLVLKQQNLPVTRILDNLMEMKSNPETDDYRYFDP
                     KMLRSNDSSVPRNKSPFQEAIVFVVGGGNYIEYQNLVDYIKGKQGKHILYGCSEIFNA
                     TQFIKQLSQLGQK"
     exon            60..130
                     /gene="Scfd1"
                     /gene_synonym="RA410; rSly1; Sly1"
                     /inference="alignment:Splign:2.1.0"
     exon            131..219
                     /gene="Scfd1"
                     /gene_synonym="RA410; rSly1; Sly1"
                     /inference="alignment:Splign:2.1.0"
     exon            220..310
                     /gene="Scfd1"
                     /gene_synonym="RA410; rSly1; Sly1"
                     /inference="alignment:Splign:2.1.0"
     exon            311..433
                     /gene="Scfd1"
                     /gene_synonym="RA410; rSly1; Sly1"
                     /inference="alignment:Splign:2.1.0"
     exon            434..521
                     /gene="Scfd1"
                     /gene_synonym="RA410; rSly1; Sly1"
                     /inference="alignment:Splign:2.1.0"
     exon            522..611
                     /gene="Scfd1"
                     /gene_synonym="RA410; rSly1; Sly1"
                     /inference="alignment:Splign:2.1.0"
     exon            612..667
                     /gene="Scfd1"
                     /gene_synonym="RA410; rSly1; Sly1"
                     /inference="alignment:Splign:2.1.0"
     exon            668..753
                     /gene="Scfd1"
                     /gene_synonym="RA410; rSly1; Sly1"
                     /inference="alignment:Splign:2.1.0"
     exon            754..853
                     /gene="Scfd1"
                     /gene_synonym="RA410; rSly1; Sly1"
                     /inference="alignment:Splign:2.1.0"
     exon            854..993
                     /gene="Scfd1"
                     /gene_synonym="RA410; rSly1; Sly1"
                     /inference="alignment:Splign:2.1.0"
     exon            994..1084
                     /gene="Scfd1"
                     /gene_synonym="RA410; rSly1; Sly1"
                     /inference="alignment:Splign:2.1.0"
     exon            1085..1158
                     /gene="Scfd1"
                     /gene_synonym="RA410; rSly1; Sly1"
                     /inference="alignment:Splign:2.1.0"
     exon            1159..1240
                     /gene="Scfd1"
                     /gene_synonym="RA410; rSly1; Sly1"
                     /inference="alignment:Splign:2.1.0"
     exon            1241..1337
                     /gene="Scfd1"
                     /gene_synonym="RA410; rSly1; Sly1"
                     /inference="alignment:Splign:2.1.0"
     exon            1338..1408
                     /gene="Scfd1"
                     /gene_synonym="RA410; rSly1; Sly1"
                     /inference="alignment:Splign:2.1.0"
     exon            1409..1488
                     /gene="Scfd1"
                     /gene_synonym="RA410; rSly1; Sly1"
                     /inference="alignment:Splign:2.1.0"
     exon            1489..1551
                     /gene="Scfd1"
                     /gene_synonym="RA410; rSly1; Sly1"
                     /inference="alignment:Splign:2.1.0"
     exon            1552..1627
                     /gene="Scfd1"
                     /gene_synonym="RA410; rSly1; Sly1"
                     /inference="alignment:Splign:2.1.0"
     exon            1628..1681
                     /gene="Scfd1"
                     /gene_synonym="RA410; rSly1; Sly1"
                     /inference="alignment:Splign:2.1.0"
     exon            1682..1734
                     /gene="Scfd1"
                     /gene_synonym="RA410; rSly1; Sly1"
                     /inference="alignment:Splign:2.1.0"
     exon            1735..1768
                     /gene="Scfd1"
                     /gene_synonym="RA410; rSly1; Sly1"
                     /inference="alignment:Splign:2.1.0"
     exon            1769..1834
                     /gene="Scfd1"
                     /gene_synonym="RA410; rSly1; Sly1"
                     /inference="alignment:Splign:2.1.0"
     exon            1835..1903
                     /gene="Scfd1"
                     /gene_synonym="RA410; rSly1; Sly1"
                     /inference="alignment:Splign:2.1.0"
     exon            1904..2095
                     /gene="Scfd1"
                     /gene_synonym="RA410; rSly1; Sly1"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 agccgggcag tgaatggtgg gaagcaagat ggcggccagc attcgggaaa ggcaaacagt
       61 ggctctgaag cggatgttga atttcaatgt gcctcatgtt aaaaacagtc ctggagaacc
      121 cgtatggaag gtactcatct atgacagatt tggccaagat atcatctctc ctctgctgtc
      181 tgtgaaggag ctgagagaca tgggcatcac cctgcatctc cttttgcact cagaccgaga
      241 tccaattcga gatgttcctg cggtgtactt tgtgatgcca accgaagaaa atattgacag
      301 actgtgccag gatcttcgaa atcagctcta tgaatcctat tatttaaatt ttatttctgc
      361 gatttcaaga agtaaactgg aagacattgc aaatgcagca ttggccgcta atgcagtcac
      421 acaggttgcc aaggtttttg accagtatct caattttatt actttggaag aggacatgtt
      481 tgtattatgt aatcaaaata aggaacttgt ttcatatcgg gccattaata ggccagatat
      541 cacagacaca gagatggaga ctgttatgga cactattgtt gacagcctct tctgcttttt
      601 tgttacatta ggtgctgttc ccatcatccg atgctcaaga ggaacggcag cagaaatggt
      661 ggcagtgaaa ctagataaaa aactgcggga gaatctaaga gatgcaagaa acagcctttt
      721 tactggtgat ccacttggga ctggccagtt cagcttccaa aggcccttat tagtccttgt
      781 ggacagaaac attgacttgg caacgcctct gcaccatacg tggacatacc aagcgctggt
      841 acacgatgtc ctggatttcc acttaaacag agtaaatttg gaagaatcta caggagtgga
      901 aaattctcca actggtgcta gaccaaagag gaaaaacaag aagtcttacg atttaactcc
      961 agttgataaa ttttggcaga aacataaagg aagtccattc ccagaagtcg cagaatcagt
     1021 ccaacaagaa ctagaatctt acagagcaca agaagatgag gtcaaacgac tgaagagcat
     1081 tatgggccta gaaggagagg acgaaggagc catcagcatg ctttctgata acactgctaa
     1141 gctcacatca gctgtcagtt ctttgccaga actccttgaa aaaaaaagac ttatcgatct
     1201 ccatacaaat gtcgccactg ctgttttaga acacataaag gcaagaaaac tggatgtata
     1261 ttttgaatat gaagaaaaaa taatgagcaa gactactctg gataagtccc ttctcgacgt
     1321 catatctgac cctgacgcag ggactccgga agacaaaatg aggctgtttc ttatctacta
     1381 cataagcgct cagcaggcac catctgaggt tgatttggag cagtataaaa aggctttaac
     1441 agatgcagga tgcaacctta gccctttaca gtatatcaaa cagtggaagg cttttgccaa
     1501 gatggcctca actcctgcca gctacggaaa cactaccact aaaccaatgg gtctcttgtc
     1561 ccgagtcatg aatacaggat cccagtttgt gatggaaggc gtcaagaacc tggtattgaa
     1621 gcagcagaat ctacctgtta ctcggatttt agacaatctc atggagatga agtcaaaccc
     1681 cgagactgat gattacagat attttgatcc caaaatgctg cggagcaatg acagctcagt
     1741 tcctaggaac aaaagtccat tccaagaggc cattgtcttt gtggtaggag gaggcaacta
     1801 tattgagtat cagaatcttg ttgactacat aaagggaaag caaggcaagc atattttgta
     1861 tggctgcagt gagattttta atgctacaca gttcataaaa cagctgtcac agcttggaca
     1921 aaagtaacac agaagagtca taatgggtga tcagtgtgga cagatgtaaa aagccagacg
     1981 tgtccttctc catagcagtg ccctaacagt gcaacctgcg gaatcagtca tttttaaaga
     2041 aattctatac ttcatatact gtacaatgat taaaataata aaccatttca gaagt
//
