LOCUS       NM_001393743            5379 bp    mRNA    linear   ROD 27-MAR-2024
DEFINITION  Rattus norvegicus Cdc42 guanine nucleotide exchange factor 9
            (Arhgef9), transcript variant 2, mRNA.
ACCESSION   NM_001393743 XM_039100038
VERSION     NM_001393743.1
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 5379)
  AUTHORS   George,S., Bear,J. Jr., Taylor,M.J., Kanamalla,K., Fekete,C.D.,
            Chiou,T.T., Miralles,C.P., Papadopoulos,T. and De Blas,A.L.
  TITLE     Collybistin SH3-protein isoforms are expressed in the rat brain
            promoting gephyrin and GABA-A receptor clustering at GABAergic
            synapses
  JOURNAL   J Neurochem 157 (4), 1032-1051 (2021)
   PUBMED   33316079
  REMARK    GeneRIF: Collybistin SH3-protein isoforms are expressed in the rat
            brain promoting gephyrin and GABA-A receptor clustering at
            GABAergic synapses.
REFERENCE   2  (bases 1 to 5379)
  AUTHORS   Uezu,A., Kanak,D.J., Bradshaw,T.W., Soderblom,E.J., Catavero,C.M.,
            Burette,A.C., Weinberg,R.J. and Soderling,S.H.
  TITLE     Identification of an elaborate complex mediating postsynaptic
            inhibition
  JOURNAL   Science 353 (6304), 1123-1129 (2016)
   PUBMED   27609886
REFERENCE   3  (bases 1 to 5379)
  AUTHORS   Mayer,S., Kumar,R., Jaiswal,M., Soykan,T., Ahmadian,M.R., Brose,N.,
            Betz,H., Rhee,J.S. and Papadopoulos,T.
  TITLE     Collybistin activation by GTP-TC10 enhances postsynaptic gephyrin
            clustering and hippocampal GABAergic neurotransmission
  JOURNAL   Proc Natl Acad Sci U S A 110 (51), 20795-20800 (2013)
   PUBMED   24297911
  REMARK    GeneRIF: The enhancement of Cb-induced gephyrin clustering by
            GTP-TC10 does not depend on the guanine nucleotide exchange
            activity of Cb but involves an interaction that resembles reported
            interactions of other small GTPases with their effectors
REFERENCE   4  (bases 1 to 5379)
  AUTHORS   Kuhse,J., Kalbouneh,H., Schlicksupp,A., Mukusch,S., Nawrotzki,R.
            and Kirsch,J.
  TITLE     Phosphorylation of gephyrin in hippocampal neurons by
            cyclin-dependent kinase CDK5 at Ser-270 is dependent on collybistin
  JOURNAL   J Biol Chem 287 (37), 30952-30966 (2012)
   PUBMED   22778260
  REMARK    GeneRIF: Phosphorylation of gephyrin in hippocampal neurons by
            cyclin-dependent kinase CDK5 at Ser-270 is dependent on
            collybistin.
REFERENCE   5  (bases 1 to 5379)
  AUTHORS   Korber,C., Richter,A., Kaiser,M., Schlicksupp,A., Mukusch,S.,
            Kuner,T., Kirsch,J. and Kuhse,J.
  TITLE     Effects of distinct collybistin isoforms on the formation of
            GABAergic synapses in hippocampal neurons
  JOURNAL   Mol Cell Neurosci 50 (3-4), 250-259 (2012)
   PUBMED   22659578
  REMARK    GeneRIF: Collybistin (Cb) knock-down induced impairment in
            GABAergic neurotransmission could be rescued by the expression of
            any of the Cb isoforms, independent of their C-termini or the
            presence of the SH3-domain in the N-terminal region.
REFERENCE   6  (bases 1 to 5379)
  AUTHORS   Papadopoulos,T., Korte,M., Eulenburg,V., Kubota,H.,
            Retiounskaia,M., Harvey,R.J., Harvey,K., O'Sullivan,G.A., Laube,B.,
            Hulsmann,S., Geiger,J.R. and Betz,H.
  TITLE     Impaired GABAergic transmission and altered hippocampal synaptic
            plasticity in collybistin-deficient mice
  JOURNAL   EMBO J 26 (17), 3888-3899 (2007)
   PUBMED   17690689
REFERENCE   7  (bases 1 to 5379)
  AUTHORS   Xiang,S., Kim,E.Y., Connelly,J.J., Nassar,N., Kirsch,J.,
            Winking,J., Schwarz,G. and Schindelin,H.
  TITLE     The crystal structure of Cdc42 in complex with collybistin II, a
            gephyrin-interacting guanine nucleotide exchange factor
  JOURNAL   J Mol Biol 359 (1), 35-46 (2006)
   PUBMED   16616186
REFERENCE   8  (bases 1 to 5379)
  AUTHORS   Harvey,K., Duguid,I.C., Alldred,M.J., Beatty,S.E., Ward,H.,
            Keep,N.H., Lingenfelter,S.E., Pearce,B.R., Lundgren,J., Owen,M.J.,
            Smart,T.G., Luscher,B., Rees,M.I. and Harvey,R.J.
  TITLE     The GDP-GTP exchange factor collybistin: an essential determinant
            of neuronal gephyrin clustering
  JOURNAL   J Neurosci 24 (25), 5816-5826 (2004)
   PUBMED   15215304
  REMARK    GeneRIF: translocates gephyrin to submembrane microaggregates
REFERENCE   9  (bases 1 to 5379)
  AUTHORS   Grosskreutz,Y., Hermann,A., Kins,S., Fuhrmann,J.C., Betz,H. and
            Kneussel,M.
  TITLE     Identification of a gephyrin-binding motif in the GDP/GTP exchange
            factor collybistin
  JOURNAL   Biol Chem 382 (10), 1455-1462 (2001)
   PUBMED   11727829
REFERENCE   10 (bases 1 to 5379)
  AUTHORS   Kins,S., Betz,H. and Kirsch,J.
  TITLE     Collybistin, a newly identified brain-specific GEF, induces
            submembrane clustering of gephyrin
  JOURNAL   Nat Neurosci 3 (1), 22-29 (2000)
   PUBMED   10607391
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000021.1.
            
            On Mar 8, 2021 this sequence version replaced XM_039100038.1.
            
            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 :: SRR26360172.870302.1,
                                           SRR26643298.32073.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMN12840106,
                                           SAMN12840107 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-823               JAXUCZ010000021.1  64058584-64059406   c
            824-1003            JAXUCZ010000021.1  64025769-64025948   c
            1004-1195           JAXUCZ010000021.1  64004041-64004232   c
            1196-1375           JAXUCZ010000021.1  63986726-63986905   c
            1376-1608           JAXUCZ010000021.1  63970748-63970980   c
            1609-1738           JAXUCZ010000021.1  63966899-63967028   c
            1739-1870           JAXUCZ010000021.1  63960848-63960979   c
            1871-2114           JAXUCZ010000021.1  63945305-63945548   c
            2115-2183           JAXUCZ010000021.1  63935183-63935251   c
            2184-5379           JAXUCZ010000021.1  63929168-63932363   c
FEATURES             Location/Qualifiers
     source          1..5379
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="X"
                     /map="Xq22"
     gene            1..5379
                     /gene="Arhgef9"
                     /note="Cdc42 guanine nucleotide exchange factor 9"
                     /db_xref="GeneID:66013"
                     /db_xref="RGD:620719"
     exon            1..823
                     /gene="Arhgef9"
                     /inference="alignment:Splign:2.1.0"
     exon            824..1003
                     /gene="Arhgef9"
                     /inference="alignment:Splign:2.1.0"
     CDS             878..2365
                     /gene="Arhgef9"
                     /note="isoform 2 is encoded by transcript variant 2; rho
                     guanine nucleotide exchange factor 9; rac/Cdc42 guanine
                     nucleotide exchange factor 9; collybistin I; Cdc42 guanine
                     nucleotide exchange factor (GEF) 9; rho guanine nucleotide
                     exchange factor 9-like"
                     /codon_start=1
                     /product="rho guanine nucleotide exchange factor 9 isoform
                     2"
                     /protein_id="NP_001380672.1"
                     /db_xref="GeneID:66013"
                     /db_xref="RGD:620719"
                     /translation="MANRELAFKAGDVIKVLDASNKDWWWGQIDDEEGWFPASFVRLW
                     VNQEDGVEEGPSDVQNGHLDPNSDCLCLGRPLQNRDQMRANVINEIMSTERHYIKHLK
                     DICEGYLKQCRKRRDMFSDEQLKVIFGNIEDIYRFQMGFVRDLEKQYNNDDPHLSEIG
                     PCFLEHQDGFWIYSEYCNNHLDACMELSKLMKDSRYQHFFEACRLLQQMIDIAIDGFL
                     LTPVQKICKYPLQLAELLKYTAQDHSDYRYVAAALAVMRNVTQQINERKRRLENIDKI
                     AQWQASVLDWEGDDILDRSSELIYTGEMAWIYQPYGRNQQRVFFLFDHQMVLCKKDLI
                     RRDILYYKGRIDMDKYEVIDIEDGRDDDFNVSMKNAFKLHNKETEEVHLFFAKKLEEK
                     IRWLRAFREERKMVQEDEKIGFEISENQKRQAAMTVRKASKQKGVNSARSVPPSYPPP
                     QDPLNQGQYLVPDGIAQSQVFEFTEPKRSQSPFWQNFSRLTPFKK"
     exon            1004..1195
                     /gene="Arhgef9"
                     /inference="alignment:Splign:2.1.0"
     exon            1196..1375
                     /gene="Arhgef9"
                     /inference="alignment:Splign:2.1.0"
     exon            1376..1608
                     /gene="Arhgef9"
                     /inference="alignment:Splign:2.1.0"
     exon            1609..1738
                     /gene="Arhgef9"
                     /inference="alignment:Splign:2.1.0"
     exon            1739..1870
                     /gene="Arhgef9"
                     /inference="alignment:Splign:2.1.0"
     exon            1871..2114
                     /gene="Arhgef9"
                     /inference="alignment:Splign:2.1.0"
     exon            2115..2183
                     /gene="Arhgef9"
                     /inference="alignment:Splign:2.1.0"
     exon            2184..5379
                     /gene="Arhgef9"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 gtggggagag gagagggaga gggccagcta ggaaaggcta ggaagagtgg ctggtagcct
       61 ggaatccctt gaggagagcc agcagacaag aggtcttagg aagctgatga actagaaaga
      121 gtaggggaga ctgagactga ccggtagcca gctaggcaga cggacgcatg cccggacaga
      181 cagaaggctc tggagaaccg ataggttcat tttgcctttc cttttgaaaa gcaggatttt
      241 gatttttctg tggcgcccaa gagagaatgc tggactctgc taccttcagc tcaagctaag
      301 atttctcagt tagggaagaa agatcagttc agtcccgaga gggggaggga agcaaaagcc
      361 cctgcctcca acccccttcc ctcccccgga ccaaactcgg gggccaaacc cagaccttcc
      421 ctaaccatct gacttcctcc tttccttttt agcatggtgg ctgtatggac agtctgacag
      481 aacagagatt gacatctccc aatctgccag ccccccacct ggaacactac agtgttctgc
      541 attgcaccat gaccctggat gtgcaaactg tagtcgtttt tgccgtgatt gtagtcctcc
      601 tgcttgtcaa tgtcatactc atgtttttct tgggaacgcg ctgaatggag tccagccacc
      661 tgagctgttg cgaactctca ctttgatttc atcccaagag cctctgaggg ggaaaaaatc
      721 aagagagaca gtctgagaca gggaaagaga gggagagaaa gaacaagctt tcttactcag
      781 gggggaaaac gttttgagct tcaacatggc ctcgctgtga tatctgatca ctggagattc
      841 catcgttagt gctgaggcag tatgggatca cgtcaccatg gccaaccggg agttggcatt
      901 taaggctggc gacgtcatca aagtcttgga tgcttccaac aaggattggt ggtggggcca
      961 gatcgacgat gaggagggat ggtttcctgc cagctttgtg aggctctggg tgaaccagga
     1021 ggatggggtg gaggaagggc ccagtgacgt gcagaatggg cacctggacc ccaactcaga
     1081 ctgcctctgt ctgggccggc cactacagaa ccgggaccag atgcgggcca atgtcatcaa
     1141 tgagatcatg agcacggaac gtcattacat caagcatctc aaggacattt gcgaggggta
     1201 cctgaagcag tgccgaaaga gaagggacat gttcagtgat gagcagctga aagtcatctt
     1261 tggaaacatt gaagacatct acagatttca gatgggcttc gtgagagact tggagaagca
     1321 gtacaacaat gatgaccccc acctcagcga gataggaccc tgcttcttgg agcatcaaga
     1381 tggcttctgg atatactctg agtattgtaa caaccacctg gatgcctgca tggagctctc
     1441 caaactgatg aaggacagcc gctatcaaca cttctttgag gcctgccgcc tcttgcagca
     1501 gatgatcgac atcgctatcg atggttttct tttgactcca gtacagaaga tctgcaaata
     1561 ccccttacaa ttggccgagc tcctaaagta tactgcccaa gaccacagtg attacagata
     1621 tgtcgcagct gctttggctg tcatgagaaa tgtgactcag cagatcaatg aacgcaagcg
     1681 acgtctggag aatattgaca agattgctca atggcaggcc tctgtcctag actgggaggg
     1741 agatgacatc ttagacagga gctcggaact gatctacact ggagagatgg cctggatcta
     1801 ccagccctat ggccgcaacc agcagagagt cttcttcctg tttgaccacc agatggtcct
     1861 ctgcaagaag gacctaatcc ggagagacat cctatactac aaggggcgca ttgacatgga
     1921 taaatatgag gtcattgaca ttgaagatgg cagagatgat gactttaatg tcagcatgaa
     1981 aaatgctttc aagctgcaca acaaggaaac cgaagaagta catctgttct ttgccaagaa
     2041 actggaggag aaaatacgtt ggcttagagc tttcagagaa gagaggaaaa tggtacaaga
     2101 agatgaaaaa attggctttg agatttctga aaatcagaag agacaggctg caatgactgt
     2161 gagaaaagcg tctaaacaga aaggtgtcaa ctctgctcgc tcagttccac cttcctatcc
     2221 accaccacag gacccgttaa accagggcca gtacctggtc cccgatggca tcgctcagtc
     2281 tcaagtgttt gagttcactg aaccgaaacg cagccagtca ccattctggc aaaacttcag
     2341 taggttaacc cccttcaaaa aataatacct ataggaaggc agataatttt aaaataaata
     2401 aaattatatt tatagatgga cctttttttc ggagaagcac tgttgaaaat ttatatatat
     2461 atatatatat aaaatgtgtg tgtgagagag agagaatgag tgtgtgtgcg tgcgtgtgtg
     2521 tgcacacata catgcacgca cacacataga cctttacgta tacacgtgtg tgtgtgggca
     2581 tgtgtgcaca tatgcatgca catgcatgca cacatacata catatacaca cacagagaag
     2641 gaccaaaacc attttctgtt gttttgggga atcgaaatct atagttggta agaagtacca
     2701 ctgatttcca aacatgtaat cacttcttaa aatatttagt tcttaacctt gttcccctcc
     2761 ccctttctct ttgttctttt tcctgttaag ataacttatt cgctcttcta gttcactgac
     2821 ctgtcattat taccacagag tatttgcatt gttttattcc cctttcctta tgatactgat
     2881 gctgataact tttgaattta atttatgtag tgggtttggg atttcatttc tctccctgtc
     2941 acttttcact gagaagggga ggattcccat ctcctgttcc tcatgcacca tctgcaaatg
     3001 ttcctgtagc cctgcagttc taccaacagc cttttcccag catcctgtgt ccacagttgt
     3061 gccagtctag acatgctctg ttgtgccctg tgacttatct gcttggtatt tctattgctt
     3121 tcactgtttt aggtattgtg gaaggatata aaaccaaaca gaaacaaagg agtgaaagaa
     3181 cgtaatgagg gtagagaaga cttctgttag gtggatagtt tgtatttagg tgatttcttc
     3241 tagcactgag aattcccagt aacagcaatg ctaagtcatt gaaggttttt acctaagagt
     3301 tagtttggct ccattagtct ctttttcaag cctcttttat tatgaatctc cttttcagcc
     3361 tatctcttcc ctaggcaaaa ggtttaacta aactagaagc aaagaaattg agactctgcc
     3421 tcctggggaa gagattaatc tccaccccac aacccatagg tagtaagtag gtatcagata
     3481 gggctctcta tatagtgttc tggtcatccc tgcttccaat ttcagattca taaggcatta
     3541 ctgttagaag tttatggagg agttcaagag aaaaacatgc ttggccaaga tcattagcca
     3601 ccttcagatt aattgaaaag agttcaaggt tgacaacagc atcatatagg gaaatatcag
     3661 agaaaggctt catctaagat aatataccag taatttgtat cactgaaatt ataagaaaca
     3721 tccccaattg ttagcagatt gcatggataa tcttctctgt ctccttctct gcccttacca
     3781 tcttccgggt agaggactgt gaatattgac atagttaaag ccattatggc attcaaagta
     3841 ggttttgttc ctgacagact cccgtcccag gacaactgag gcacgtgata tagaaggagc
     3901 ctagggctac tcttacatct ggggaaaaag atctgaggca gaacactgag gttaattctt
     3961 gggaggcttt ccatttgaac agaatgtttc ccacaaaagc agaatttcca tgagtacaag
     4021 agtgtgtatt ctttgccatt tagccttttg tatggctaga gattggggca agaaaaaaaa
     4081 agaaaagaaa aataaaaaga agtgtgaaaa cccaccctaa ccaggaatct ggagattgag
     4141 tctgtcctgg acctcacaag aaaagacttc attctaaaaa agatttaagc ttaccaaaca
     4201 gcaaccattg ctgtataagg tcaataaagc taaattttgc ttcctgatct aaactaaacc
     4261 ctactccctg aaaatctttc ccctatggaa aacaagctcc atgttgttgt caggctttgt
     4321 agttatcaaa gctggctggc agaacaccag ggctcgggac tggctgtcac tgctcagcac
     4381 atgatagagc tctacataag cccttatggc aagaaatctg gtatctaata catagactac
     4441 aaaatttcac ttccgaatat gcaggcctcc cttattgtac cttcttttcc tactttaccc
     4501 atcttcacta ggcttggcct tgggaacctt ctccaagatt aggagcacac cagaagggct
     4561 tgctttcaaa gtttttagat ctataatatc tttaggccag accctctcat tctcttgccc
     4621 tttctgaatc caacactcaa gactcccaga tcaggggtat tacctctgat catcctgttt
     4681 ctccatccag tccactggcc ttacaagatg tagcaatttg tgaaggcact actgatttag
     4741 ctctcatttg actggaacac cccgctccac ccccacacct atggctcaaa gtagatcagt
     4801 ggccagtagc ccaaagggaa actaatcaat tccctggact cagtagctaa acctgttggg
     4861 ttcccacagc catgttaccc cccccaaact ctgtaattct cctgtttctg catggccttg
     4921 tactcccctt tcctcaactc aatgaggcct gaattttctt tccaaaaggg tttttgcaag
     4981 tttgttctat gagttctact gtagggaggt cctaaataca gaaatgcgat ttttctctcc
     5041 ttctctcatc ctctttctat gtgtatatct ttaattgatc tattaaggac agcaacaaga
     5101 gagttctaac aattctagta tgaagccaaa tagtgatatt ttagtgcttt gggggtgggg
     5161 cgggctgggt gaatagatgg gcaacagtga ttctgatgac ccctgctgct ctgcatttgc
     5221 tggtttcttc ttttgtttct attatctgac tgtttgaccc tgtcaaacaa gtgtcaaaat
     5281 tgtgtatttg gaaatgttta acaacaacaa aaaagatgtt gtaatgacat aaagccttat
     5341 gaaaatattt atggagttca ataaaagaag taaaaagaa
//
