LOCUS       NM_001013377            2454 bp    mRNA    linear   ROD 05-JUN-2024
DEFINITION  Mus musculus Rho guanine nucleotide exchange factor 39 (Arhgef39),
            mRNA.
ACCESSION   NM_001013377 XM_006537830 XM_131404 XM_898450 XM_898453 XM_898456
            XM_898461 XM_898475 XM_898481 XM_905563 XM_919397 XM_919405
            XM_919409 XM_919415 XM_919425 XM_919433
VERSION     NM_001013377.3
KEYWORDS    RefSeq; RefSeq Select.
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 2454)
  AUTHORS   Bedogni,F. and Hevner,R.F.
  TITLE     Cell-Type-Specific Gene Expression in Developing Mouse Neocortex:
            Intermediate Progenitors Implicated in Axon Development
  JOURNAL   Front Mol Neurosci 14, 686034 (2021)
   PUBMED   34321999
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 2454)
  AUTHORS   Loo,L., Simon,J.M., Xing,L., McCoy,E.S., Niehaus,J.K., Guo,J.,
            Anton,E.S. and Zylka,M.J.
  TITLE     Single-cell transcriptomic analysis of mouse neocortical
            development
  JOURNAL   Nat Commun 10 (1), 134 (2019)
   PUBMED   30635555
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 2454)
  AUTHORS   Ray,J.P., Staron,M.M., Shyer,J.A., Ho,P.C., Marshall,H.D.,
            Gray,S.M., Laidlaw,B.J., Araki,K., Ahmed,R., Kaech,S.M. and
            Craft,J.
  TITLE     The Interleukin-2-mTORc1 Kinase Axis Defines the Signaling,
            Differentiation, and Metabolism of T Helper 1 and Follicular B
            Helper T Cells
  JOURNAL   Immunity 43 (4), 690-702 (2015)
   PUBMED   26410627
REFERENCE   4  (bases 1 to 2454)
  AUTHORS   Harrow,J.L., Steward,C.A., Frankish,A., Gilbert,J.G.,
            Gonzalez,J.M., Loveland,J.E., Mudge,J., Sheppard,D., Thomas,M.,
            Trevanion,S. and Wilming,L.G.
  TITLE     The Vertebrate Genome Annotation browser 10 years on
  JOURNAL   Nucleic Acids Res 42 (Database issue), D771-D779 (2014)
   PUBMED   24316575
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            BY210170.1, AL732506.10, BY110275.1, BC080700.1 and CA326178.1.
            
            On or before Sep 25, 2017 this sequence version replaced
            XM_006537830.3, NM_001013377.2.
            
            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 :: SRR17253014.3813978.1,
                                           SRR1660815.181600.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164140, SAMN01164143
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-31                BY210170.1         1-31
            32-32               AL732506.10        122877-122877       c
            33-277              BY210170.1         33-277
            278-278             AL732506.10        122010-122010       c
            279-341             BY210170.1         279-341
            342-350             AL732506.10        121938-121946       c
            351-542             AL732506.10        118501-118692       c
            543-811             AL732506.10        113791-114059       c
            812-1130            BY110275.1         3-321
            1131-2403           BC080700.1         323-1595
            2404-2454           CA326178.1         617-667
FEATURES             Location/Qualifiers
     source          1..2454
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="4"
                     /map="4 23.04 cM"
     gene            1..2454
                     /gene="Arhgef39"
                     /gene_synonym="E130306D19Rik"
                     /note="Rho guanine nucleotide exchange factor 39"
                     /db_xref="GeneID:230098"
                     /db_xref="MGI:MGI:3036286"
     exon            1..163
                     /gene="Arhgef39"
                     /gene_synonym="E130306D19Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            164..350
                     /gene="Arhgef39"
                     /gene_synonym="E130306D19Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            351..542
                     /gene="Arhgef39"
                     /gene_synonym="E130306D19Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            543..971
                     /gene="Arhgef39"
                     /gene_synonym="E130306D19Rik"
                     /inference="alignment:Splign:2.1.0"
     CDS             834..1868
                     /gene="Arhgef39"
                     /gene_synonym="E130306D19Rik"
                     /note="vav-like protein C9orf100 homolog; Rho guanine
                     nucleotide exchange factor (GEF) 39"
                     /codon_start=1
                     /product="rho guanine nucleotide exchange factor 39"
                     /protein_id="NP_001013395.2"
                     /db_xref="CCDS:CCDS18098.1"
                     /db_xref="GeneID:230098"
                     /db_xref="MGI:MGI:3036286"
                     /translation="MESSGSAACCPVLQQRARWERKRVCTARELLETERRYQEQLGLV
                     ATYFLRILKAKGTLRPPELQTLFGTWELIYAASLELLPYLEEGQWGLGLQGFCPHLEL
                     YAQFAANAERSQTTLQAQLKKNKRFRRFVKLQEGRPEFRGLQLQDLLPLPLQRLQQYE
                     NLVVALAENTVPNSPDYQQLTRAARLVSETAQKVHAIGQSQKNDQHLLRVQALLSGRK
                     AKGLTSGRWFLRQGWLLVVPPTGEPRPRMFFLFSDVLLMAKPRPPLHLLKSGTFVCRA
                     LYPMSQCHLSRVFGHSGGPCGGLLSLSFPHEKLLLMSTDQEELSQWHHSLTLAIRSQK
                     SSTHRSVTAT"
     exon            972..1066
                     /gene="Arhgef39"
                     /gene_synonym="E130306D19Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1067..1187
                     /gene="Arhgef39"
                     /gene_synonym="E130306D19Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1188..1306
                     /gene="Arhgef39"
                     /gene_synonym="E130306D19Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1307..1377
                     /gene="Arhgef39"
                     /gene_synonym="E130306D19Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1378..1506
                     /gene="Arhgef39"
                     /gene_synonym="E130306D19Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1507..1736
                     /gene="Arhgef39"
                     /gene_synonym="E130306D19Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1737..1825
                     /gene="Arhgef39"
                     /gene_synonym="E130306D19Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1826..2404
                     /gene="Arhgef39"
                     /gene_synonym="E130306D19Rik"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2382..2387
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Arhgef39"
                     /gene_synonym="E130306D19Rik"
                     /note="hexamer: AATAAA"
     polyA_site      2404
                     /gene="Arhgef39"
                     /gene_synonym="E130306D19Rik"
                     /note="major polyA site"
ORIGIN      
        1 agttccggga gaggctggag ctcataaccc agaagttcca ggggttgcag agtgcggcag
       61 aatgcggtgc gctccaggcg gatgtctacc ggggactgaa agcggccagc acaggctggg
      121 gacacctggg gccagagtag ggtgcctggg atgagaggaa aagttcctgg cttagagcca
      181 agcacggtgg cgcacacacc tgaaatccca gaactcggag gaagaagaag gtaaagggca
      241 gaactagttc aaggccaatc cgatctacac aataagacct tatctcatcc tccgccccca
      301 gagcaaacca aagttcctcc acctgtcttt tcccacaccg caaatcatag gcctcctgcc
      361 atcatgtcag gcttgcaaga caagtggctt tatctgcgga accatcttgc taacccaagg
      421 aaggaagcct ttcttaacca actctccgcc cccttctgtc tggaagagtc tagtggtgcc
      481 tttgaaccac cactgttgca tgcttgacct cggttataat tttgctcaca attcatattc
      541 agacactgaa gccctgacaa tgtctgcatt ctggagtctc ctgtctccgt gttcagaccg
      601 tagtgtcact ttagcgtctg gcaccgatgc tactacacct gggactcgca cgacctcgcc
      661 tagctggtgg ggcggacaca ggcagacgag cccggccgct agcggctgcc cgcgcatgct
      721 ctatgctgcg cgctcggctc ctgaaccgca gctcccgcgg ccccgcccac tgagcggttg
      781 gaatttgaat ctccggcgcg acgctgcggg aagagtaaaa ccctgggtca aacatggaga
      841 gttcgggatc cgccgcgtgc tgcccggtgc tacagcagcg tgctcgttgg gaacggaaac
      901 gtgtctgcac cgctcgggag ctgctggaga ccgagcgacg ctaccaggaa caactggggc
      961 tggtggccac gtacttcctg cggatcctga aagccaaagg aacactacga ccaccagaac
     1021 tccagaccct gtttgggacc tgggagctca tctatgccgc cagcctagag ctgcttccct
     1081 atctggaaga agggcagtgg ggactggggc tacagggctt ctgcccccac ctggagctct
     1141 acgcccaatt tgctgccaac gcagagagat ctcagactac ccttcaggcg cagctgaaga
     1201 agaataagcg ttttcggagg ttcgtgaagc ttcaggaagg tcgccctgaa tttaggggtc
     1261 ttcagctcca ggacctgctc cctctgcctc tgcagcggct ccaacagtac gagaatcttg
     1321 tcgtggcttt ggctgagaac acagttccca acagccctga ctaccagcag ctcacacggg
     1381 ctgctcgcct ggtaagtgag acggcccaga aggtccacgc catcggccag agtcagaaga
     1441 atgatcagca tctgctgcgt gtccaggctc tactcagtgg gcgcaaggca aaagggctga
     1501 cttcaggccg ctggttccta cggcagggct ggcttttagt ggtgcctccc actggggagc
     1561 ctcggccccg gatgttcttc cttttctccg acgtgctcct catggccaag cctcggcccc
     1621 cactgcacct gctgaagagt ggcacctttg tctgcagagc cctgtaccct atgtcccagt
     1681 gtcaccttag cagggtcttt ggccattcgg gaggaccttg tggtggtttg ctcagtctgt
     1741 cctttcccca tgagaagcta ctgcttatgt ctactgacca ggaggagctg tcacagtggc
     1801 accacagcct gactctggct atcagaagcc agaagagctc gacccacaga agtgtcactg
     1861 caacatgaca ttgtcatcta caaacatgct ggggccatat tcacagctat cctgggatac
     1921 acatggcagc tgggtgtgcc tatgaagaat cttacaaatt ccagaactcg gatactcagg
     1981 aatagggcag agccacgaac aaaagggaat gtacttcgat tgagcctcag tggaacaagt
     2041 ccctttaacg ccctgccact ggggggcctg aaaagcccct gctgtctgtg gccagcggtt
     2101 aatcccattt gcagctttga aaaggagtcc attttgttgt tattgcctat ggtttcctga
     2161 tttattcttg agaaaggatc ttacccaggc tgaccatgaa tttgaattcc ttctgcctca
     2221 gtctctcagg tgttgggtta taggtgtgtg ctgccacacc tggctattgt atatagtttg
     2281 ttttcttgag acaaggtttc atgcagtcca gggtggcctt gaactccaga tcctcctgaa
     2341 ctacctccta tgttctataa tttatttccc cactggatct taataaaggg ttgtttttgc
     2401 aaaaaaaaaa aaaaaaaaaa aaaaaaaaaa aaaaaaaaaa aaaaaaaaaa aaaa
//
