LOCUS       NM_025251               4830 bp    mRNA    linear   PRI 13-FEB-2025
DEFINITION  Homo sapiens Rho GTPase activating protein 39 (ARHGAP39),
            transcript variant 3, mRNA.
ACCESSION   NM_025251 XM_005272343 XM_011517309 XM_496999
VERSION     NM_025251.3
KEYWORDS    RefSeq; MANE Select.
SOURCE      Homo sapiens (human)
  ORGANISM  Homo sapiens
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
            Catarrhini; Hominidae; Homo.
REFERENCE   1  (bases 1 to 4830)
  AUTHORS   Alayoubi,A.M., Alfadhli,F., Mehnaz, Albalawi,A.M., Ramzan,K.,
            Jelani,M. and Basit,S.
  TITLE     A homozygous variant in ARHGAP39 is associated with lethal
            cerebellar vermis hypoplasia in a consanguineous Saudi family
  JOURNAL   Sci Rep 14 (1), 25291 (2024)
   PUBMED   39455833
  REMARK    GeneRIF: A homozygous variant in ARHGAP39 is associated with lethal
            cerebellar vermis hypoplasia in a consanguineous Saudi family.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4830)
  AUTHORS   Yao,L., Li,Y., Li,S., Wang,M., Cao,H., Xu,L. and Xu,Y.
  TITLE     ARHGAP39 is a prognostic biomarker involved in immune infiltration
            in breast cancer
  JOURNAL   BMC Cancer 23 (1), 440 (2023)
   PUBMED   37189064
  REMARK    GeneRIF: ARHGAP39 is a prognostic biomarker involved in immune
            infiltration in breast cancer.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 4830)
  AUTHORS   Ding,Y., Gong,Y., Zeng,H., Zhou,X., Yu,Z., Pan,J., Zhou,M., Liu,S.
            and Lai,W.
  TITLE     Biological function analysis of ARHGAP39 as an independent
            prognostic biomarker in hepatocellular carcinoma
  JOURNAL   Aging (Albany NY) 15 (7), 2631-2666 (2023)
   PUBMED   37059586
  REMARK    GeneRIF: Biological function analysis of ARHGAP39 as an independent
            prognostic biomarker in hepatocellular carcinoma.
REFERENCE   4  (bases 1 to 4830)
  AUTHORS   Rietveld,C.A., Esko,T., Davies,G., Pers,T.H., Turley,P.,
            Benyamin,B., Chabris,C.F., Emilsson,V., Johnson,A.D., Lee,J.J., de
            Leeuw,C., Marioni,R.E., Medland,S.E., Miller,M.B., Rostapshova,O.,
            van der Lee,S.J., Vinkhuyzen,A.A., Amin,N., Conley,D.,
            Derringer,J., van Duijn,C.M., Fehrmann,R., Franke,L., Glaeser,E.L.,
            Hansell,N.K., Hayward,C., Iacono,W.G., Ibrahim-Verbaas,C.,
            Jaddoe,V., Karjalainen,J., Laibson,D., Lichtenstein,P.,
            Liewald,D.C., Magnusson,P.K., Martin,N.G., McGue,M., McMahon,G.,
            Pedersen,N.L., Pinker,S., Porteous,D.J., Posthuma,D.,
            Rivadeneira,F., Smith,B.H., Starr,J.M., Tiemeier,H., Timpson,N.J.,
            Trzaskowski,M., Uitterlinden,A.G., Verhulst,F.C., Ward,M.E.,
            Wright,M.J., Davey Smith,G., Deary,I.J., Johannesson,M., Plomin,R.,
            Visscher,P.M., Benjamin,D.J., Cesarini,D. and Koellinger,P.D.
  TITLE     Common genetic variants associated with cognitive performance
            identified using the proxy-phenotype method
  JOURNAL   Proc Natl Acad Sci U S A 111 (38), 13790-13794 (2014)
   PUBMED   25201988
  REMARK    Erratum:[Proc Natl Acad Sci U S A. 2015 Jan 27;112(4):E380. doi:
            10.1073/pnas.1424631112.. PMID: 25572966]
REFERENCE   5  (bases 1 to 4830)
  AUTHORS   Argos,M., Tong,L., Pierce,B.L., Rakibuz-Zaman,M., Ahmed,A.,
            Islam,T., Rahman,M., Paul-Brutus,R., Rahaman,R., Roy,S.,
            Jasmine,F., Kibriya,M.G. and Ahsan,H.
  TITLE     Genome-wide association study of smoking behaviours among
            Bangladeshi adults
  JOURNAL   J Med Genet 51 (5), 327-333 (2014)
   PUBMED   24665060
REFERENCE   6  (bases 1 to 4830)
  AUTHORS   Lim,J., Ritt,D.A., Zhou,M. and Morrison,D.K.
  TITLE     The CNK2 scaffold interacts with vilse and modulates Rac cycling
            during spine morphogenesis in hippocampal neurons
  JOURNAL   Curr Biol 24 (7), 786-792 (2014)
   PUBMED   24656827
REFERENCE   7  (bases 1 to 4830)
  AUTHORS   Hu,H., Li,M., Labrador,J.P., McEwen,J., Lai,E.C., Goodman,C.S. and
            Bashaw,G.J.
  TITLE     Cross GTPase-activating protein (CrossGAP)/Vilse links the
            Roundabout receptor to Rac to regulate midline repulsion
  JOURNAL   Proc Natl Acad Sci U S A 102 (12), 4613-4618 (2005)
   PUBMED   15755809
REFERENCE   8  (bases 1 to 4830)
  AUTHORS   Beausoleil,S.A., Jedrychowski,M., Schwartz,D., Elias,J.E.,
            Villen,J., Li,J., Cohn,M.A., Cantley,L.C. and Gygi,S.P.
  TITLE     Large-scale characterization of HeLa cell nuclear phosphoproteins
  JOURNAL   Proc Natl Acad Sci U S A 101 (33), 12130-12135 (2004)
   PUBMED   15302935
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AF186192.5, AC084125.9 and KF573657.1.
            
            On or before Mar 10, 2021 this sequence version replaced
            XM_011517309.2, NM_025251.2.
            
            Transcript Variant: This variant (3) differs in the 5' UTR, and
            includes an alternate in-frame exon in the 3' coding region,
            compared to variant 1. The encoded isoform (2) is longer than
            isoform 1.
            
            CCDS Note: This CCDS representation lacks full-length human
            transcript support. Its representation is therefore inferred, but
            it is supported by paralogous transcripts.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR11853560.28174.1,
                                           SRR18074967.852762.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000377307.7/ ENSP00000366522.2
            RefSeq Select criteria :: based on manual assertion, conservation,
                                      expression, longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-161               AF186192.5         73172-73332         c
            162-166             AC084125.9         23055-23059
            167-322             KF573657.1         170-325             c
            323-754             AC084125.9         47474-47905
            755-838             AC084125.9         73108-73191
            839-2201            AC084125.9         80262-81624
            2202-2763           AC084125.9         82941-83502
            2764-2856           AC084125.9         90938-91030
            2857-2930           AC084125.9         94549-94622
            2931-3130           AC084125.9         95426-95625
            3131-3222           AC084125.9         96355-96446
            3223-3392           AC084125.9         97880-98049
            3393-4830           AC084125.9         98135-99572
FEATURES             Location/Qualifiers
     source          1..4830
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="8"
                     /map="8q24.3"
     gene            1..4830
                     /gene="ARHGAP39"
                     /gene_synonym="CrGAP; Vilse"
                     /note="Rho GTPase activating protein 39"
                     /db_xref="GeneID:80728"
                     /db_xref="HGNC:HGNC:29351"
                     /db_xref="MIM:615880"
     exon            1..161
                     /gene="ARHGAP39"
                     /gene_synonym="CrGAP; Vilse"
                     /inference="alignment:Splign:2.1.0"
     exon            162..322
                     /gene="ARHGAP39"
                     /gene_synonym="CrGAP; Vilse"
                     /inference="alignment:Splign:2.1.0"
     CDS             243..3587
                     /gene="ARHGAP39"
                     /gene_synonym="CrGAP; Vilse"
                     /note="isoform 2 is encoded by transcript variant 3;
                     crossGAP homolog; RhoGAP93B homolog"
                     /codon_start=1
                     /product="rho GTPase-activating protein 39 isoform 2"
                     /protein_id="NP_079527.1"
                     /db_xref="CCDS:CCDS34971.1"
                     /db_xref="GeneID:80728"
                     /db_xref="HGNC:HGNC:29351"
                     /db_xref="MIM:615880"
                     /translation="MSQTQDYECRSHNVDLPESRIPGSNTRLEWVEIIEPRTRERMYA
                     NLVTGECVWDPPAGVRIKRTSENQWWELFDPNTSRFYYYNASTQRTVWHRPQGCDIIP
                     LAKLQTLKQNTESPRASAESSPGRGSSVSREGSTSSSLEPEPDTEKAQELPARAGRPA
                     AFGTVKEDSGSSSPPGVFLEKDYEIYRDYSADGQLLHYRTSSLRWNSGAKERMLIKVA
                     DREPSFLAAQGNGYAPDGPPGVRSRRPSGSQHSPSLQTFAPEADGTIFFPERRPSPFL
                     KRAELPGSSSPLLAQPRKPSGDSQPSSPRYGYEPPLYEEPPVEYQAPIYDEPPMDVQF
                     EAGGGYQAGSPQRSPGRKPRPFLQPNKQGPPSPCQQLVLTKQKCPERFLSLEYSPAGK
                     EYVRQLVYVEQAGSSPKLRAGPRHKYAPNPGGGSYSLQPSPCLLRDQRLGVKSGDYST
                     MEGPELRHSQPPTPLPQAQEDAMSWSSQQDTLSSTGYSPGTRKRKSRKPSLCQATSAT
                     PTEGPGDLLVEQPLAEEQPPCGTSLAPVKRAEGEAEGARGAAEPFLAQARLAWEAQQA
                     HFHMKQRSSWDSQQDGSGYESDGALPLPMPGPVVRAFSEDEALAQQENRHWRRGTFEK
                     LGFPQILLEKSVSVQTNLASPEPYLHPSQSEDLAACAQFESSRQSRSGVPSSSCVFPT
                     FTLRKPSSETDIENWASKHFNKHTQGLFRRKVSIANMLAWSSESIKKPMIVTSDRHVK
                     KEACELFKLIQMYMGDRRAKADPLHVALEVATKGWSVQGLRDELYIQLCRQTTENFRL
                     ESLARGWELMAICLAFFPPTPKFHSYLEGYIYRHMDPVNDTKVTQHIKELLERNTKKK
                     SKLRKKPKPYVEEPDGVAISTYAKYCYHKLQKAALTGAKKGLKKPNVEEIRHAKNAVF
                     SPSMFGSALQEVMGMQRERYPERQLPWVQTRLSEEVLALNGDQTEGIFRVPGDIDEVN
                     ALKLQVDQWKVPTGLEDPHVPASLLKLWYRELEEPLIPHEFYEQCIAHYDSPEAAVAV
                     VHALPRINRMVLCYLIRFLQVFVQPANVAVTKMDVSNLAMVMAPNCLRCQSDDPRVIF
                     ENTRKEMSFLRVLIQHLDTSFMEGVL"
     exon            323..754
                     /gene="ARHGAP39"
                     /gene_synonym="CrGAP; Vilse"
                     /inference="alignment:Splign:2.1.0"
     exon            755..838
                     /gene="ARHGAP39"
                     /gene_synonym="CrGAP; Vilse"
                     /inference="alignment:Splign:2.1.0"
     exon            839..2201
                     /gene="ARHGAP39"
                     /gene_synonym="CrGAP; Vilse"
                     /inference="alignment:Splign:2.1.0"
     exon            2202..2763
                     /gene="ARHGAP39"
                     /gene_synonym="CrGAP; Vilse"
                     /inference="alignment:Splign:2.1.0"
     exon            2764..2856
                     /gene="ARHGAP39"
                     /gene_synonym="CrGAP; Vilse"
                     /inference="alignment:Splign:2.1.0"
     exon            2857..2930
                     /gene="ARHGAP39"
                     /gene_synonym="CrGAP; Vilse"
                     /inference="alignment:Splign:2.1.0"
     exon            2931..3130
                     /gene="ARHGAP39"
                     /gene_synonym="CrGAP; Vilse"
                     /inference="alignment:Splign:2.1.0"
     exon            3131..3222
                     /gene="ARHGAP39"
                     /gene_synonym="CrGAP; Vilse"
                     /inference="alignment:Splign:2.1.0"
     exon            3223..3392
                     /gene="ARHGAP39"
                     /gene_synonym="CrGAP; Vilse"
                     /inference="alignment:Splign:2.1.0"
     exon            3393..4830
                     /gene="ARHGAP39"
                     /gene_synonym="CrGAP; Vilse"
                     /inference="alignment:Splign:2.1.0"
     regulatory      4809..4814
                     /regulatory_class="polyA_signal_sequence"
                     /gene="ARHGAP39"
                     /gene_synonym="CrGAP; Vilse"
                     /note="hexamer: AATAAA"
     polyA_site      4830
                     /gene="ARHGAP39"
                     /gene_synonym="CrGAP; Vilse"
                     /note="major polyA site"
ORIGIN      
        1 gcgcactggg ccggcggcgg cggcggagga cgccgacagc acgggctgcc gcggcagcag
       61 cggcggagca gcagagaggc cggggagcgg cggctggctc acgcgcgtcg cgcgggccgg
      121 gatgagggac tgtggcggcg cggcccgcgc gcagccggcc gtgcggcacc ttcccgtctg
      181 atgctggcgt tgtgcgtatg gtgccctgac gtctgtccac gtgggcgcgg aagcaaacag
      241 cgatgtccca gacgcaggac tacgagtgca ggagccataa tgtcgacctg ccggagtcga
      301 ggattccagg gtcgaacact cggttggagt gggtggagat catcgaaccg cgcacccgcg
      361 agcgcatgta cgccaacctg gtcaccggtg agtgcgtgtg ggacccgccg gccggcgtcc
      421 gcatcaagcg caccagcgag aaccagtggt gggagctgtt cgaccccaac acgtcccgct
      481 tctactacta caatgccagc acgcagcgca cggtgtggca ccggccgcag ggctgcgaca
      541 tcatcccgct ggccaagctg cagacgctga agcagaacac ggagtccccg cgcgcctcgg
      601 cggagagcag ccccgggcgc ggcagcagcg tcagccgtga gggcagcacc agctcctccc
      661 tggagcccga gcccgacact gagaaagcgc aggagttgcc agcgagggcc gggcggcccg
      721 cggcgtttgg gacagtgaag gaggacagcg gcagctcttc accaccagga gtgttccttg
      781 agaaggacta tgagatttac cgggattaca gtgcggacgg ccagcttctt cactacagga
      841 cctcctcgct gcggtggaac tcgggcgcca aagagcgcat gctcatcaag gtcgctgatc
      901 gggagcccag cttcctcgcc gcccagggca atggctacgc cccagacggc ccacctgggg
      961 tccgctcccg cagaccctcc ggcagccagc actcacccag cctgcagacc ttcgccccgg
     1021 aggctgacgg caccatcttc ttcccagaga ggaggccgtc acccttcctg aagagggccg
     1081 agctcccagg gagcagctcc ccgctgctgg cccagccccg aaagccctcc ggggactcgc
     1141 agccctcctc cccgcgctat ggctatgaac ccccgctcta cgaggagccc ccagtggagt
     1201 accaggcccc catctacgat gagcccccca tggacgtgca attcgaggct ggcgggggct
     1261 accaggccgg ctctccccag cggtcgccgg gccgtaagcc ccggccgttc ctccagccca
     1321 acaagcaggg ccccccctcg ccctgccagc agctggtgct caccaagcag aagtgtcccg
     1381 agcgcttcct gagcctggag tacagtcccg ccggcaagga gtacgtgcgg cagctggtct
     1441 acgtggagca ggcgggctcc agccccaagc tgcgcgccgg cccgcggcac aagtacgcgc
     1501 ccaaccccgg cggtggttcg tactccttgc agcccagccc ctgcctgctg agggaccagc
     1561 gcctgggcgt caagtccgga gactacagca ccatggaggg acctgagctg cggcacagcc
     1621 agccgcccac gccgctgcca caggcccagg aggatgccat gtcctggtcc agccagcagg
     1681 acaccctgtc ctccacaggc tactccccgg gcacgcgcaa gcggaagagc agaaagccct
     1741 ctttgtgcca agccaccagc gccaccccca ctgagggccc cggggacctg cttgtggagc
     1801 agcccctggc cgaggaacag cccccgtgcg ggaccagcct cgcccccgtg aagcgagcgg
     1861 aaggtgaggc cgaaggggcg cggggcgcgg ccgagccctt cctggcgcag gctcggctgg
     1921 cctgggaggc gcagcaggcc cacttccaca tgaagcagag gagcagctgg gactcccagc
     1981 aggacggctc tggctacgag agcgacggcg ccctgccact gcccatgccc gggccggtgg
     2041 tgcgggcctt cagcgaggac gaggcgctgg cccagcagga gaacaggcac tggaggaggg
     2101 gcaccttcga gaagctaggc ttcccccaga tcctgctgga gaagagcgtc tccgtgcaga
     2161 ccaacctggc ctcaccagag ccctacctcc acccctcaca gtctgaggac ctcgctgcct
     2221 gtgcccagtt cgagagcagc cggcagagcc gcagcggcgt tcccagctcc agctgcgtct
     2281 tccccacttt cacgctgcgc aagccctcct cggagacgga catcgagaac tgggcctcca
     2341 agcacttcaa caagcacacg cagggcctct tccggcggaa ggtgtccatc gccaacatgc
     2401 tggcctggag cagcgagtcc atcaagaagc ccatgatcgt gacaagcgac cggcacgtga
     2461 agaaggaggc ctgcgagctc ttcaagctga tccagatgta catgggtgac cggcgggcca
     2521 aggccgaccc actgcacgtg gccctggagg tggccaccaa gggctggagc gtgcagggcc
     2581 tgcgggacga gctctacatc cagctgtgcc ggcagaccac cgagaacttc cgcctggaga
     2641 gcctggcccg cggctgggag ctcatggcca tctgcctggc ctttttcccg cccaccccca
     2701 agttccactc ctacctggaa ggctacatct accggcacat ggaccccgtc aatgacacta
     2761 aagtgacaca gcacataaaa gagctcctgg aaagaaacac taagaagaag tccaaattga
     2821 gaaagaaacc caagccttat gttgaagagc cggatggggt ggcgataagc acgtatgcca
     2881 agtactgtta ccacaagcta cagaaggcag ccctgaccgg ggccaagaag gggctgaaga
     2941 agcccaacgt ggaggagatc cggcatgcca agaacgccgt gttcagcccg tccatgttcg
     3001 gcagcgcact gcaggaggtc atgggcatgc agagagagcg ctaccccgag cgccagctgc
     3061 cctgggtgca gacacggctc tctgaggagg tgctggcgct caacggtgac cagacagagg
     3121 gcatcttcag ggtccctggg gacattgacg aggtgaatgc cctgaagctg caggtggacc
     3181 agtggaaggt gcccacaggc ctggaagacc cccacgtccc tgcgtccctg ctgaagctgt
     3241 ggtaccggga gctggaggag cccctgatcc cgcacgagtt ctacgagcag tgcatcgcgc
     3301 actacgacag ccccgaggcg gcggtggccg tggtgcacgc gctgccccgc atcaaccgca
     3361 tggtgctgtg ctacctcatc cgcttcctgc aggtcttcgt gcagccggcc aacgtcgcgg
     3421 tcaccaagat ggatgtcagc aacctggcca tggtgatggc gcccaactgc ttgcgctgcc
     3481 agtccgacga cccgcgcgtc atcttcgaga acacccgcaa ggagatgtcc ttcctgcggg
     3541 tgctcatcca gcacctggac accagcttca tggagggtgt gctgtagcgg gggcgcccgg
     3601 ggacaggagg gatgtcctgc cgcccccagc caggccgaac tccgcactcg ctctcccggc
     3661 agaggggcca gaatcgcccg gcccagccct ggagccccct ccactccccc aggcccctgg
     3721 ccccggcgct ccccacgtct tctgcctggt ctgagggtgc agccagggca cagcagcggc
     3781 ggggagggcg cctctggccc cccacctcac ggccagttcc cgcgggcacc gcctcgccct
     3841 ccgctggccg cgggtcagct ccgagaaagt gccttctgtg tcctggagcc gagcgacgct
     3901 gcctccttgg ggccgggctg cctccctgtg gctcctgcgc gccctggcct gggccttgcc
     3961 cagccgcccc ggtctctcct tccctttctc ctgtcctcgt cctggcctgc agctcttccc
     4021 agccccgaga gagcttcccg acctgtcccc gcctcctctc cctccctcgg cccgtggtcc
     4081 ccagctggtg actgctcagg agtttggggg ctccaggaca gtgggcccgg ggcctggcag
     4141 gctctcggtg ggtggggtgg gggcccccaa accaaagtcc tctggggtag ggagcagggc
     4201 tgggcaggca ttctgggggc agggtggggg aggggcgaga gtattttttt cttcgtgtaa
     4261 ctgtaaatcc agaatctatc ctgcatcgca gcccaccgtg tatagagata taaatagagg
     4321 gaaagatata agaactaaat ttgctaatga catagtttta acctaaatgc tatttatctc
     4381 tgagccgtcc ccgtcctccg tgcagagcaa gttgaggtca ttccttcttt tcttctccga
     4441 tcttttttct tggcttctga ccaaaaacca agctctaccc catccccatc ccagacctgc
     4501 aggagacgag cgagcgggaa ggcgccgggc ccgggactgt ccgttctcgg ggccagagct
     4561 gctgggggac cgagtttgta cattttccat tttggaattt tgagttccaa ttgttgtaaa
     4621 acttaatttc tccccagttt ttatatatat attttttaga gttccgtttt tatttattaa
     4681 aaacaaaagc cccagccctg ccgaggcctg ggcggcgtcc tcagtcgggt ggtcccgggg
     4741 cctttgcggt cccgcccggc tgagacgctc gccccgacgc atggacccga gaggcgacga
     4801 cacgagtgaa taaagtgcac atggaccctg
//
