LOCUS       NM_024604               4339 bp    mRNA    linear   PRI 20-SEP-2024
DEFINITION  Homo sapiens RNA polymerase II associated protein 3 (RPAP3),
            transcript variant 1, mRNA.
ACCESSION   NM_024604
VERSION     NM_024604.3
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 4339)
  AUTHORS   Cho,N.H., Cheveralls,K.C., Brunner,A.D., Kim,K., Michaelis,A.C.,
            Raghavan,P., Kobayashi,H., Savy,L., Li,J.Y., Canaj,H., Kim,J.Y.S.,
            Stewart,E.M., Gnann,C., McCarthy,F., Cabrera,J.P., Brunetti,R.M.,
            Chhun,B.B., Dingle,G., Hein,M.Y., Huang,B., Mehta,S.B.,
            Weissman,J.S., Gomez-Sjoberg,R., Itzhak,D.N., Royer,L.A., Mann,M.
            and Leonetti,M.D.
  TITLE     OpenCell: Endogenous tagging for the cartography of human cellular
            organization
  JOURNAL   Science 375 (6585), eabi6983 (2022)
   PUBMED   35271311
REFERENCE   2  (bases 1 to 4339)
  AUTHORS   Huttlin,E.L., Bruckner,R.J., Navarrete-Perea,J., Cannon,J.R.,
            Baltier,K., Gebreab,F., Gygi,M.P., Thornock,A., Zarraga,G., Tam,S.,
            Szpyt,J., Gassaway,B.M., Panov,A., Parzen,H., Fu,S., Golbazi,A.,
            Maenpaa,E., Stricker,K., Guha Thakurta,S., Zhang,T., Rad,R.,
            Pan,J., Nusinow,D.P., Paulo,J.A., Schweppe,D.K., Vaites,L.P.,
            Harper,J.W. and Gygi,S.P.
  TITLE     Dual proteome-scale networks reveal cell-specific remodeling of the
            human interactome
  JOURNAL   Cell 184 (11), 3022-3040 (2021)
   PUBMED   33961781
REFERENCE   3  (bases 1 to 4339)
  AUTHORS   Cloutier,P., Poitras,C., Faubert,D., Bouchard,A., Blanchette,M.,
            Gauthier,M.S. and Coulombe,B.
  TITLE     Upstream ORF-Encoded ASDURF Is a Novel Prefoldin-like Subunit of
            the PAQosome
  JOURNAL   J Proteome Res 19 (1), 18-27 (2020)
   PUBMED   31738558
REFERENCE   4  (bases 1 to 4339)
  AUTHORS   Henri,J., Chagot,M.E., Bourguet,M., Abel,Y., Terral,G., Maurizy,C.,
            Aigueperse,C., Georgescauld,F., Vandermoere,F., Saint-Fort,R.,
            Behm-Ansmant,I., Charpentier,B., Pradet-Balade,B., Verheggen,C.,
            Bertrand,E., Meyer,P., Cianferani,S., Manival,X. and Quinternet,M.
  TITLE     Deep Structural Analysis of RPAP3 and PIH1D1, Two Components of the
            HSP90 Co-chaperone R2TP Complex
  JOURNAL   Structure 26 (9), 1196-1209 (2018)
   PUBMED   30033218
  REMARK    GeneRIF: Results show the TPR2 domain in RPAP3 is responsible for
            the recruitment of HSP90, its N-terminal domain participates to the
            positive regulation of HSP90.
REFERENCE   5  (bases 1 to 4339)
  AUTHORS   Horejsi,Z., Takai,H., Adelman,C.A., Collis,S.J., Flynn,H.,
            Maslen,S., Skehel,J.M., de Lange,T. and Boulton,S.J.
  TITLE     CK2 phospho-dependent binding of R2TP complex to TEL2 is essential
            for mTOR and SMG1 stability
  JOURNAL   Mol Cell 39 (6), 839-850 (2010)
   PUBMED   20864032
REFERENCE   6  (bases 1 to 4339)
  AUTHORS   Gano,J.J. and Simon,J.A.
  TITLE     A proteomic investigation of ligand-dependent HSP90 complexes
            reveals CHORDC1 as a novel ADP-dependent HSP90-interacting protein
  JOURNAL   Mol Cell Proteomics 9 (2), 255-270 (2010)
   PUBMED   19875381
REFERENCE   7  (bases 1 to 4339)
  AUTHORS   Cloutier,P., Al-Khoury,R., Lavallee-Adam,M., Faubert,D., Jiang,H.,
            Poitras,C., Bouchard,A., Forget,D., Blanchette,M. and Coulombe,B.
  TITLE     High-resolution mapping of the protein interaction network for the
            human transcription machinery and affinity purification of RNA
            polymerase II-associated complexes
  JOURNAL   Methods 48 (4), 381-386 (2009)
   PUBMED   19450687
  REMARK    GeneRIF: Is part of an RNA polymerase II-associated complex with
            possible chaperone activity.
REFERENCE   8  (bases 1 to 4339)
  AUTHORS   Ni,L., Saeki,M., Xu,L., Nakahara,H., Saijo,M., Tanaka,K. and
            Kamisaki,Y.
  TITLE     RPAP3 interacts with Reptin to regulate UV-induced phosphorylation
            of H2AX and DNA damage
  JOURNAL   J Cell Biochem 106 (5), 920-928 (2009)
   PUBMED   19180575
  REMARK    GeneRIF: RPAP3 interacts with Reptin to modulate UV-induced DNA
            damage by regulating H2AX phosphorylation
REFERENCE   9  (bases 1 to 4339)
  AUTHORS   Itsuki,Y., Saeki,M., Nakahara,H., Egusa,H., Irie,Y., Terao,Y.,
            Kawabata,S., Yatani,H. and Kamisaki,Y.
  TITLE     Molecular cloning of novel Monad binding protein containing
            tetratricopeptide repeat domains
  JOURNAL   FEBS Lett 582 (16), 2365-2370 (2008)
   PUBMED   18538670
  REMARK    GeneRIF: Overexpression of RPAP3 in HEK 293 cells potentiated
            caspase-3 activation and apoptosis.
REFERENCE   10 (bases 1 to 4339)
  AUTHORS   Jeronimo,C., Forget,D., Bouchard,A., Li,Q., Chua,G., Poitras,C.,
            Therien,C., Bergeron,D., Bourassa,S., Greenblatt,J., Chabot,B.,
            Poirier,G.G., Hughes,T.R., Blanchette,M., Price,D.H. and
            Coulombe,B.
  TITLE     Systematic analysis of the protein interaction network for the
            human transcription machinery reveals the identity of the 7SK
            capping enzyme
  JOURNAL   Mol Cell 27 (2), 262-274 (2007)
   PUBMED   17643375
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from DA096405.1, AK025561.1,
            BC056415.1, AC004241.2 and N39593.1.
            
            On Nov 23, 2018 this sequence version replaced NM_024604.2.
            
            Summary: This gene encodes an RNA polymerase II-associated protein.
            The encoded protein may function in transcriptional regulation and
            may also regulate apoptosis. Alternatively spliced transcript
            variants have been described. [provided by RefSeq, Mar 2009].
            
            Transcript Variant: This variant (1) represents the longest
            transcript and encodes the longest isoform (1).
            
            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.
            
            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 :: SRR1803613.55751.1,
                                           SRR1660803.240884.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000005386.8/ ENSP00000005386.3
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-39                DA096405.1         32-70
            40-1535             AK025561.1         1-1496
            1536-2295           BC056415.1         1390-2149
            2296-3503           AC004241.2         29802-31009         c
            3504-3656           N39593.1           1-153               c
            3657-4339           AC004241.2         28966-29648         c
FEATURES             Location/Qualifiers
     source          1..4339
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="12"
                     /map="12q13.11"
     gene            1..4339
                     /gene="RPAP3"
                     /gene_synonym="hSpagh; Tah1"
                     /note="RNA polymerase II associated protein 3"
                     /db_xref="GeneID:79657"
                     /db_xref="HGNC:HGNC:26151"
                     /db_xref="MIM:611477"
     exon            1..79
                     /gene="RPAP3"
                     /gene_synonym="hSpagh; Tah1"
                     /inference="alignment:Splign:2.1.0"
     exon            80..238
                     /gene="RPAP3"
                     /gene_synonym="hSpagh; Tah1"
                     /inference="alignment:Splign:2.1.0"
     CDS             86..2083
                     /gene="RPAP3"
                     /gene_synonym="hSpagh; Tah1"
                     /note="isoform 1 is encoded by transcript variant 1"
                     /codon_start=1
                     /product="RNA polymerase II-associated protein 3 isoform
                     1"
                     /protein_id="NP_078880.2"
                     /db_xref="CCDS:CCDS8753.1"
                     /db_xref="GeneID:79657"
                     /db_xref="HGNC:HGNC:26151"
                     /db_xref="MIM:611477"
                     /translation="MTSANKAIELQLQVKQNAEELQDFMRDLENWEKDIKQKDMELRR
                     QNGVPEENLPPIRNGNFRKKKKGKAKESSKKTREENTKNRIKSYDYEAWAKLDVDRIL
                     DELDKDDSTHESLSQESESEEDGIHVDSQKALVLKEKGNKYFKQGKYDEAIDCYTKGM
                     DADPYNPVLPTNRASAYFRLKKFAVAESDCNLAVALNRSYTKAYSRRGAARFALQKLE
                     EAKKDYERVLELEPNNFEATNELRKISQALASKENSYPKEADIVIKSTEGERKQIEAQ
                     QNKQQAISEKDRGNGFFKEGKYERAIECYTRGIAADGANALLPANRAMAYLKIQKYEE
                     AEKDCTQAILLDGSYSKAFARRGTARTFLGKLNEAKQDFETVLLLEPGNKQAVTELSK
                     IKKELIEKGHWDDVFLDSTQRQNVVKPIDNPPHPGSTKPLKKVIIEETGNLIQTIDVP
                     DSTTAAAPENNPINLANVIAATGTTSKKNSSQDDLFPTSDTPRAKVLKIEEVSDTSSL
                     QPQASLKQDVCQSYSEKMPIEIEQKPAQFATTVLPPIPANSFQLESDFRQLKSSPDML
                     YQYLKQIEPSLYPKLFQKNLDPDVFNQIVKILHDFYIEKEKPLLIFEILQRLSELKRF
                     DMAVMFMSETEKKIARALFNHIDKSGLKDSSVEELKKRYGG"
     exon            239..379
                     /gene="RPAP3"
                     /gene_synonym="hSpagh; Tah1"
                     /inference="alignment:Splign:2.1.0"
     exon            380..502
                     /gene="RPAP3"
                     /gene_synonym="hSpagh; Tah1"
                     /inference="alignment:Splign:2.1.0"
     exon            503..630
                     /gene="RPAP3"
                     /gene_synonym="hSpagh; Tah1"
                     /inference="alignment:Splign:2.1.0"
     exon            631..752
                     /gene="RPAP3"
                     /gene_synonym="hSpagh; Tah1"
                     /inference="alignment:Splign:2.1.0"
     exon            753..823
                     /gene="RPAP3"
                     /gene_synonym="hSpagh; Tah1"
                     /inference="alignment:Splign:2.1.0"
     exon            824..949
                     /gene="RPAP3"
                     /gene_synonym="hSpagh; Tah1"
                     /inference="alignment:Splign:2.1.0"
     exon            950..1077
                     /gene="RPAP3"
                     /gene_synonym="hSpagh; Tah1"
                     /inference="alignment:Splign:2.1.0"
     exon            1078..1199
                     /gene="RPAP3"
                     /gene_synonym="hSpagh; Tah1"
                     /inference="alignment:Splign:2.1.0"
     exon            1200..1270
                     /gene="RPAP3"
                     /gene_synonym="hSpagh; Tah1"
                     /inference="alignment:Splign:2.1.0"
     exon            1271..1372
                     /gene="RPAP3"
                     /gene_synonym="hSpagh; Tah1"
                     /inference="alignment:Splign:2.1.0"
     exon            1373..1611
                     /gene="RPAP3"
                     /gene_synonym="hSpagh; Tah1"
                     /inference="alignment:Splign:2.1.0"
     exon            1612..1798
                     /gene="RPAP3"
                     /gene_synonym="hSpagh; Tah1"
                     /inference="alignment:Splign:2.1.0"
     exon            1799..1896
                     /gene="RPAP3"
                     /gene_synonym="hSpagh; Tah1"
                     /inference="alignment:Splign:2.1.0"
     exon            1897..1997
                     /gene="RPAP3"
                     /gene_synonym="hSpagh; Tah1"
                     /inference="alignment:Splign:2.1.0"
     exon            1998..4339
                     /gene="RPAP3"
                     /gene_synonym="hSpagh; Tah1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2276..2281
                     /regulatory_class="polyA_signal_sequence"
                     /gene="RPAP3"
                     /gene_synonym="hSpagh; Tah1"
                     /note="hexamer: AATAAA"
     polyA_site      2283
                     /gene="RPAP3"
                     /gene_synonym="hSpagh; Tah1"
                     /note="major polyA site"
     polyA_site      2297
                     /gene="RPAP3"
                     /gene_synonym="hSpagh; Tah1"
                     /note="major polyA site"
     regulatory      3626..3631
                     /regulatory_class="polyA_signal_sequence"
                     /gene="RPAP3"
                     /gene_synonym="hSpagh; Tah1"
                     /note="hexamer: AATAAA"
     polyA_site      3652
                     /gene="RPAP3"
                     /gene_synonym="hSpagh; Tah1"
     regulatory      4314..4319
                     /regulatory_class="polyA_signal_sequence"
                     /gene="RPAP3"
                     /gene_synonym="hSpagh; Tah1"
                     /note="hexamer: AATAAA"
     polyA_site      4339
                     /gene="RPAP3"
                     /gene_synonym="hSpagh; Tah1"
ORIGIN      
        1 gcgtgagtca ctgccgggct cggcgtgagt cgctgcgggg ctgacggggt ggcagtgcgg
       61 cgggttacgg cctggtcaga ccataatgac ttcagcaaat aaagcaatcg aattacaact
      121 acaagtgaaa caaaatgcag aagaattaca agactttatg cgggatttag aaaactggga
      181 aaaagacatt aaacaaaagg atatggaact aagaagacag aatggtgttc ctgaagagaa
      241 tttacctcct attcgaaatg ggaattttag gaaaaagaag aaaggcaaag ctaaagagtc
      301 ttccaaaaaa accagagagg aaaacacaaa aaacaggata aaatcttatg attatgaggc
      361 atgggcaaaa cttgatgtgg accgtatcct tgatgagctt gacaaagacg atagtaccca
      421 tgagtctctg tctcaagaat cagagtcgga agaagatggg attcatgtag attcacaaaa
      481 ggctcttgtt ttaaaagaaa agggcaataa atacttcaaa caaggaaaat atgatgaagc
      541 aattgactgc tacacaaaag gcatggatgc cgatccatat aatcccgtgt tgccaacgaa
      601 cagagcgtca gcatatttta gactgaaaaa atttgctgtt gctgagtctg attgtaattt
      661 agcagttgcc ttgaatagaa gttatacaaa ggcttattcc agacgaggtg ctgctcgatt
      721 tgctttgcaa aaattagaag aggccaaaaa agattatgaa agagtattag aactagaacc
      781 aaataacttt gaagcaacaa atgaactcag gaaaatcagt caggctttag catccaaaga
      841 aaactcatat ccaaaggaag ctgacatagt gattaagtca acagaaggag agcgaaagca
      901 aattgaagca caacagaata agcagcaggc catttcagag aaagatcggg ggaatggatt
      961 tttcaaagag gggaaatatg aaagagcaat tgaatgctat actcgaggga tagcagcaga
     1021 tggtgctaat gcccttcttc cagctaacag agctatggcc tatctgaaga ttcagaaata
     1081 tgaagaagct gaaaaagact gcacacaagc cattttatta gatggctcat attctaaagc
     1141 ttttgccaga agaggaactg caagaacatt tttgggaaag ctaaatgagg caaaacaaga
     1201 ttttgaaact gttttacttc tggaacctgg aaataagcaa gcagtaactg aactctccaa
     1261 aattaaaaag gaattaattg agaaaggaca ctgggatgat gtctttcttg attccacaca
     1321 aagacaaaat gtggtaaaac ccattgataa tccaccgcat cctggatcaa ctaaaccact
     1381 caagaaggtt attattgaag aaactggtaa tttgatacag actattgatg tgccagatag
     1441 cactactgct gctgctccag agaataatcc tattaatcta gcaaatgtaa tagcagccac
     1501 aggcaccaca agtaagaaga attcaagcca agatgacctt tttcccacaa gtgatactcc
     1561 aagagcaaaa gtattgaaaa tagaagaagt cagtgatact tcatccctgc aacctcaagc
     1621 cagtttgaag caggatgtat gtcagtctta cagcgagaaa atgcccatag agatagaaca
     1681 aaaacctgct cagtttgcca caactgttct tcctccaatt cctgcaaact cgttccagct
     1741 cgaatctgat ttcagacaat tgaaaagttc tccagatatg ttgtatcagt atttaaagca
     1801 aattgaacca tctttgtatc ctaagttgtt tcagaaaaat ctggatccag atgtattcaa
     1861 ccagatcgtt aaaattctgc atgactttta cattgagaaa gaaaagccat tactcatctt
     1921 tgaaatctta caaagacttt ctgaactaaa aaggtttgat atggcagtga tgtttatgtc
     1981 agaaacagag aaaaagattg cacgtgcatt atttaatcac atagacaagt caggattgaa
     2041 ggatagttct gtcgaagaac tcaagaaaag atacggtggt tgatttccat ttttgctgaa
     2101 ataattgttt ttgactttca tatgtaaatt ttttctactg aaagtgtttt gctttttaag
     2161 aaaatgaaat tatatagcag gaaaggacta tctttgaaca taagttaatt aactataagg
     2221 tgaattgtga tttaactagt gagaattgta ttcaagtgaa ctctgttttt ctgaaaataa
     2281 aaatataaac aatgagatac atttgtaagg atcagcattt tattttatga gtcattttaa
     2341 atgttaaatt tagatacatt cttcagtgac ccataaatgt aacattattt ttatattttc
     2401 atgagttttt gtaaccactt gccaaagctg cttcattagc atatgaataa ttacctttgt
     2461 aaagaggaag ttaaatagat agtgagatcc tttctttata aaacttttaa atgttattgt
     2521 gccaattcac taacatgaag ttatttagtt gcagggtatg tatgtatttt tagtatttat
     2581 gttgaaagaa agaagacttt taactagact ttcaaactag gttaattgaa gtatcacagt
     2641 attcttacat tttaatgcca tagggttttt tcccttaaga tatccatgtt acataccagt
     2701 taaggacaga taatctaatg caaggtgtaa aaatgtaaaa attagtaatg tttaaagtac
     2761 taattagcat atagcccata tgtatttgtt ggatgtgagt gtagcgtttg taaacttttg
     2821 aaagtagggc tagaactctg ctcatccctg tactctgcat agtacctagc acagacgttt
     2881 gcacatagtt aggtgctcaa ctgatactta taaaatttaa ttgaatttga cgcaagaatc
     2941 atattaagta aatgtttaaa gtagcagcct agcaaatttt tgggcatggt gtaagcactg
     3001 gtaaaaccag ttaattttag agactatcaa gttgttaaaa aatattagga caccatcctt
     3061 taattgttat cagcatcaat aagacagttc agtttacaat tttatacgat attgtggtta
     3121 atttttattg ccattataca tattactatt cttatgaatt gtttgagaag taatcataat
     3181 ttatttacaa agataatttc ttcagattgt ggtataaatt attgagatat gtttgtaatt
     3241 tggatagttt gaatgcttta aaatacactt gatagagttt attaactttg tttattgcta
     3301 aatgtattat gatatataaa caggcaattg aatttagctt tttatctgct atgatctgaa
     3361 tgtttatatc ccccacaaat tcatatgttg aaatcctaac cctgaaggcg atggtcttcg
     3421 gaggtggggc ctttgggaag tgattgggtc aagagggcag gcccttgtaa aagaggcccc
     3481 agagagcttg ttcaccaatt acaccatgta aggacacata agaaggcacc atctacgaac
     3541 aagaaggtgg gccttcacca gacaccagag accagaatct actggcatct tcatcttgga
     3601 ctccccatcc tccagaactg taagaaataa atttctgttt ttattaatgt aagctaccca
     3661 gtttgatatt ttattatagc aacccgaatg gactacggta tgatcctttg aagaaactta
     3721 caaggtagtc agggcaggta atgttattgt cattcttaac ataagaaaag gaggctcaga
     3781 gggttaatgt tctctgcatg attatagagc taaaaattgg ccaaaacagt tcagaacgtg
     3841 ctgtcttctc ttaatgtaga gctatttgaa ctacttccag ctgcagtttt tatgttgtgt
     3901 tacctgtgta gagactgtta actgaagaag tacagatcac aagatttact atagaatttg
     3961 aattttaaaa aatttctgat gttagcctga tttctcccca gagacatttt catgtagtga
     4021 tttaagacca gaggctctgg attcagactt cttgagtttg aattctggct ccatctggct
     4081 ttagggcctt ggacaagtta cttttctatt ctttgttttt gaaatctgta gaatgggtat
     4141 aagtgagatt gaatgaatgc acacattttg tttttggagc agggctggat gtatagtaag
     4201 ctactgttac tattattatt acaattacca acatttccta aaagtgatta gaataaagaa
     4261 cagtctttag gggctgtcat attgttgcct tattgcaaaa tagcatagtg gttaataaag
     4321 tcatttttgg gtcaaataa
//
