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PREDICTED: Rattus norvegicus syndecan binding protein (Sdcbp), transcript variant X5, mRNA

NCBI Reference Sequence: XM_039110859.2

FASTA Graphics 

LOCUS       XM_039110859            2617 bp    mRNA    linear   ROD 22-FEB-2024
DEFINITION  PREDICTED: Rattus norvegicus syndecan binding protein (Sdcbp),
            transcript variant X5, mRNA.
ACCESSION   XM_039110859
VERSION     XM_039110859.2
DBLINK      BioProject: PRJNA1074393
KEYWORDS    RefSeq.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
COMMENT     MODEL REFSEQ:  This record is predicted by automated computational
            analysis. This record is derived from a genomic sequence
            (NC_086023) annotated using gene prediction method: Gnomon,
            supported by mRNA and EST evidence.
            Also see:
                Documentation of NCBI's Annotation Process
            
            On Feb 22, 2024 this sequence version replaced XM_039110859.1.
            
            ##Genome-Annotation-Data-START##
            Annotation Provider         :: NCBI RefSeq
            Annotation Status           :: Full annotation
            Annotation Name             :: GCF_036323735.1-RS_2024_02
            Annotation Pipeline         :: NCBI eukaryotic genome annotation
                                           pipeline
            Annotation Software Version :: 10.2
            Annotation Method           :: Best-placed RefSeq; Gnomon;
                                           cmsearch; tRNAscan-SE
            Features Annotated          :: Gene; mRNA; CDS; ncRNA
            Annotation Date             :: 02/09/2024
            ##Genome-Annotation-Data-END##
FEATURES             Location/Qualifiers
     source          1..2617
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN/NHsdMcwi"
                     /bio_material="RGD 61498"
                     /db_xref="taxon:10116"
                     /chromosome="5"
                     /sex="male"
                     /tissue_type="kidney, spleen, liver"
                     /geo_loc_name="USA: Wisconsin, Milwaukee"
                     /lat_lon="43.05 N 88.04 W"
                     /collected_by="Rebecca Schilling, Melinda Dwinell"
     gene            1..2617
                     /gene="Sdcbp"
                     /gene_synonym="mda-9; TACIP18"
                     /note="syndecan binding protein; Derived by automated
                     computational analysis using gene prediction method:
                     Gnomon. Supporting evidence includes similarity to: 4
                     mRNAs, 4 ESTs, 1497 long SRA reads, 18 Proteins"
                     /db_xref="GeneID:83841"
                     /db_xref="RGD:621497"
     CDS             617..1519
                     /gene="Sdcbp"
                     /gene_synonym="mda-9; TACIP18"
                     /codon_start=1
                     /product="syntenin-1 isoform X1"
                     /protein_id="XP_038966787.1"
                     /db_xref="GeneID:83841"
                     /db_xref="RGD:621497"
                     /translation="MSLYPSLEDLKVDKVIQAQTASSANPASQAFFLNVVDSAAFPPG
                     GNLYPKLYPELSQYMGLSLSEAEICENMPVVSGAPTQGQLVARPSSVNYMVAPVTGND
                     AGIRRAEIKQGIREVILCKDQDGKIGLRLKSVDNGIFVQLVQANSPASLVGLRFGDQV
                     LQINGENCAGWSSDKAHKVLKQAFGEKITMTIRDRPFERTVTMHKDSSGHVGFIFKSG
                     KITSIVKDSSAARNGLLTDHHICEINGQNVIGLKDAQIADILSTAGTVVTITIMPAFI
                     FEHIIKRMAPSIMKSLMDHTIPEV"
     polyA_site      2617
                     /gene="Sdcbp"
                     /gene_synonym="mda-9; TACIP18"
                     /experiment="COORDINATES: polyA evidence [ECO:0006239]"
ORIGIN      
        1 gctcagtgga tagggtgcag tccaagtcgc ttagggtgtt ttataactga ctgctgtgga
       61 aatagaaatt aaatgatcca cttcaacttg gaaaggatct ctttgttttc ccagtatgga
      121 agataaatgc ctatgattcc atccctctat aatgataaac actgagcttg agtgattttg
      181 ttggagtttt ggagcactgt tatttgtgca aaactaaaaa actaaggagt gcagaggctg
      241 gagccagtct tgatcacgca aaaggaggtc attgaaggcc cagttttctc caggagtttc
      301 ctgcctgtgt gcattcctgc tattgtcagc tatgggagga attttatgag gagctgggaa
      361 gctagggctg cttggggagg gtacataggt ggatgtgaag aagactagga ttgctgaggg
      421 aagaaaggct gttagtagct ttcctgtgct ctcttctaga ctgtggagtt aaaaggtgac
      481 tttattccga aggaaagttg ctagagcaat tgctatgcat aagatctgtg gacatctcat
      541 ttgatctagg ccaaaaaaca aaacaaaaaa ctggctggat tttaagcaga gaagaaacaa
      601 gaaaacacct gcaaaaatgt ctctctatcc atctcttgaa gatttgaagg tagacaaagt
      661 aattcaggct caaactgcct cttctgctaa tcctgccagc caggcctttt ttttaaatgt
      721 ggtcgattct gctgccttcc ctccaggtgg aaatctctat cctaaactgt atccagaact
      781 ctctcaatac atgggactgt ctttaagtga agctgaaata tgtgaaaaca tgcctgtggt
      841 ctctggagcg ccaacccaag ggcagttggt agcaaggcca tccagtgtga actacatggt
      901 agcacctgtg acaggtaacg atgcggggat taggagagca gagattaagc aagggattcg
      961 ggaagtcatt ttgtgtaagg atcaagatgg aaaaattggg ctcagactga agtcagtaga
     1021 taatggtata tttgttcaac tagtccaggc taattcccca gcctccttgg ttgggctgcg
     1081 atttggggac caggtgctcc agatcaatgg tgaaaactgt gccggctgga gctccgataa
     1141 ggcacacaag gtgctcaagc aggcctttgg agagaagatt accatgacca ttcgtgatag
     1201 accctttgaa cggacagtta ccatgcataa ggacagcagt ggacatgttg gctttatctt
     1261 taaaagtgga aaaatcacat ccatagtgaa agacagttct gctgccagaa acggccttct
     1321 cactgatcac cacatctgtg agatcaacgg acagaacgtc attggcttga aggatgctca
     1381 gattgcagat atactgtcaa cagctgggac tgtggtcacc atcacaatca tgcctgcctt
     1441 tatcttcgaa catattatta aacggatggc tcccagcatt atgaaaagcc tgatggatca
     1501 caccattcct gaagtttaaa ccttgtacag tgcatcaccg ccgaacgctt ccagtcttcc
     1561 tcttcggcaa cttctctatt tcaccgcaca tgaagctttc ccggatccag ggagactgtg
     1621 ctgcatggag acctgtctat cttccaccat ggctgggaac ctcactctat ctgagagcgt
     1681 cttcagattt taagataggt gtagccttat cctggtttta cagatgtgaa actctcaaaa
     1741 gattccctga ctttctagac ttggttcttt actgggaacc tgatgttttt ctataagcca
     1801 ttgtgattag gatgactggt gtaggcttag ctgtgtccga gaactggtct gctttctccg
     1861 agaagtgcac agtgctaggc acgtgcttca gttctgtggc atatgtggat tgtagtacat
     1921 cagcatagta cctgtaggat gattgccttt gatcgctact ttttaagttt gtgtgtgagt
     1981 gtgtaaaatt ccagttaatc aacacttcca ttccacaaaa gcattataca gttctgtgta
     2041 ggtggcaaga gactaatgat tgtcactaaa ttctaactac cttcacttaa tgtgcttcag
     2101 ttgtcgcctt aactacagta agcatttaga ataaaagcca aaatagaatt attgctgcct
     2161 tctgaaacct gagaggttag ctctctatca agctgttcta tgctagccct gagcagctta
     2221 ctggtgtcgc agagctgcct agctgtacca agattttcta gtcactgcat aaaggaaacg
     2281 cctaagagtt gccgtattgc tttctgagat acaaattgct atatatttca tgtaaaagtt
     2341 gttatactaa ataggataaa ttttggagtc tctttttcac tcgtagatta agtgggtaat
     2401 atctaatttg gcacttgagt cctaacatta tgtaacttta gctaggttgg ggtgggttta
     2461 gaatgtttcc ctagtcatct cagtttgttc cattttctga ctctatcctg caaacaaaaa
     2521 tggcaatgac actttatcct gactctttcc ttcttagttt gtgcctatct tattatttta
     2581 tgtgatatta tcctattaaa tgtataaaaa tattaaa
//
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