LOCUS       NM_025058               3178 bp    mRNA    linear   PRI 01-JUN-2024
DEFINITION  Homo sapiens tripartite motif containing 46 (TRIM46), transcript
            variant 1, mRNA.
ACCESSION   NM_025058
VERSION     NM_025058.5
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 3178)
  AUTHORS   Liao,L., Duan,L., Guo,Y., Zhou,B., Xu,Q., Zhang,C., Liu,W., Liu,W.,
            Liu,Z., Hu,J., Chen,J. and Lu,J.
  TITLE     TRIM46 upregulates Wnt/beta-catenin signaling by inhibiting Axin1
            to mediate hypoxia-induced epithelial-mesenchymal transition in HK2
            cells
  JOURNAL   Mol Cell Biochem 477 (12), 2829-2839 (2022)
   PUBMED   35670901
  REMARK    GeneRIF: TRIM46 upregulates Wnt/beta-catenin signaling by
            inhibiting Axin1 to mediate hypoxia-induced epithelial-mesenchymal
            transition in HK2 cells.
REFERENCE   2  (bases 1 to 3178)
  AUTHORS   Kousathanas,A., Pairo-Castineira,E., Rawlik,K., Stuckey,A.,
            Odhams,C.A., Walker,S., Russell,C.D., Malinauskas,T., Wu,Y.,
            Millar,J., Shen,X., Elliott,K.S., Griffiths,F., Oosthuyzen,W.,
            Morrice,K., Keating,S., Wang,B., Rhodes,D., Klaric,L., Zechner,M.,
            Parkinson,N., Siddiq,A., Goddard,P., Donovan,S., Maslove,D.,
            Nichol,A., Semple,M.G., Zainy,T., Maleady-Crowe,F., Todd,L.,
            Salehi,S., Knight,J., Elgar,G., Chan,G., Arumugam,P., Patch,C.,
            Rendon,A., Bentley,D., Kingsley,C., Kosmicki,J.A., Horowitz,J.E.,
            Baras,A., Abecasis,G.R., Ferreira,M.A.R., Justice,A., Mirshahi,T.,
            Oetjens,M., Rader,D.J., Ritchie,M.D., Verma,A., Fowler,T.A.,
            Shankar-Hari,M., Summers,C., Hinds,C., Horby,P., Ling,L.,
            McAuley,D., Montgomery,H., Openshaw,P.J.M., Elliott,P., Walsh,T.,
            Tenesa,A., Fawkes,A., Murphy,L., Rowan,K., Ponting,C.P., Vitart,V.,
            Wilson,J.F., Yang,J., Bretherick,A.D., Scott,R.H., Hendry,S.C.,
            Moutsianas,L., Law,A., Caulfield,M.J. and Baillie,J.K.
  CONSRTM   GenOMICC investigators; 23andMe investigators; COVID-19 Human
            Genetics Initiative
  TITLE     Whole-genome sequencing reveals host factors underlying critical
            COVID-19
  JOURNAL   Nature 607 (7917), 97-103 (2022)
   PUBMED   35255492
REFERENCE   3  (bases 1 to 3178)
  AUTHORS   Tantai,J., Pan,X., Chen,Y., Shen,Y. and Ji,C.
  TITLE     TRIM46 activates AKT/HK2 signaling by modifying PHLPP2
            ubiquitylation to promote glycolysis and chemoresistance of lung
            cancer cells
  JOURNAL   Cell Death Dis 13 (3), 285 (2022)
   PUBMED   35354796
  REMARK    GeneRIF: TRIM46 activates AKT/HK2 signaling by modifying PHLPP2
            ubiquitylation to promote glycolysis and chemoresistance of lung
            cancer cells.
            Publication Status: Online-Only
REFERENCE   4  (bases 1 to 3178)
  AUTHORS   Zhang,Z., Liu,X., Li,L., Yang,Y., Yang,J., Wang,Y., Wu,J., Wu,X.,
            Shan,L., Pei,F., Liu,J., Wang,S., Li,W., Sun,L., Liang,J. and
            Shang,Y.
  TITLE     SNP rs4971059 predisposes to breast carcinogenesis and
            chemoresistance via TRIM46-mediated HDAC1 degradation
  JOURNAL   EMBO J 40 (19), e107974 (2021)
   PUBMED   34459501
  REMARK    GeneRIF: SNP rs4971059 predisposes to breast carcinogenesis and
            chemoresistance via TRIM46-mediated HDAC1 degradation.
REFERENCE   5  (bases 1 to 3178)
  AUTHORS   Bell,M., Bachmann,S., Klimek,J., Langerscheidt,F. and Zempel,H.
  TITLE     Axonal TAU Sorting Requires the C-terminus of TAU but is
            Independent of ANKG and TRIM46 Enrichment at the AIS
  JOURNAL   Neuroscience 461, 155-171 (2021)
   PUBMED   33556457
  REMARK    GeneRIF: Axonal TAU Sorting Requires the C-terminus of TAU but is
            Independent of ANKG and TRIM46 Enrichment at the AIS.
REFERENCE   6  (bases 1 to 3178)
  AUTHORS   Kottgen,A., Albrecht,E., Teumer,A., Vitart,V., Krumsiek,J.,
            Hundertmark,C., Pistis,G., Ruggiero,D., O'Seaghdha,C.M., Haller,T.,
            Yang,Q., Tanaka,T., Johnson,A.D., Kutalik,Z., Smith,A.V., Shi,J.,
            Struchalin,M., Middelberg,R.P., Brown,M.J., Gaffo,A.L., Pirastu,N.,
            Li,G., Hayward,C., Zemunik,T., Huffman,J., Yengo,L., Zhao,J.H.,
            Demirkan,A., Feitosa,M.F., Liu,X., Malerba,G., Lopez,L.M., van der
            Harst,P., Li,X., Kleber,M.E., Hicks,A.A., Nolte,I.M., Johansson,A.,
            Murgia,F., Wild,S.H., Bakker,S.J., Peden,J.F., Dehghan,A.,
            Steri,M., Tenesa,A., Lagou,V., Salo,P., Mangino,M., Rose,L.M.,
            Lehtimaki,T., Woodward,O.M., Okada,Y., Tin,A., Muller,C.,
            Oldmeadow,C., Putku,M., Czamara,D., Kraft,P., Frogheri,L.,
            Thun,G.A., Grotevendt,A., Gislason,G.K., Harris,T.B., Launer,L.J.,
            McArdle,P., Shuldiner,A.R., Boerwinkle,E., Coresh,J., Schmidt,H.,
            Schallert,M., Martin,N.G., Montgomery,G.W., Kubo,M., Nakamura,Y.,
            Tanaka,T., Munroe,P.B., Samani,N.J., Jacobs,D.R. Jr., Liu,K.,
            D'Adamo,P., Ulivi,S., Rotter,J.I., Psaty,B.M., Vollenweider,P.,
            Waeber,G., Campbell,S., Devuyst,O., Navarro,P., Kolcic,I.,
            Hastie,N., Balkau,B., Froguel,P., Esko,T., Salumets,A., Khaw,K.T.,
            Langenberg,C., Wareham,N.J., Isaacs,A., Kraja,A., Zhang,Q.,
            Wild,P.S., Scott,R.J., Holliday,E.G., Org,E., Viigimaa,M.,
            Bandinelli,S., Metter,J.E., Lupo,A., Trabetti,E., Sorice,R.,
            Doring,A., Lattka,E., Strauch,K., Theis,F., Waldenberger,M.,
            Wichmann,H.E., Davies,G., Gow,A.J., Bruinenberg,M., Stolk,R.P.,
            Kooner,J.S., Zhang,W., Winkelmann,B.R., Boehm,B.O., Lucae,S.,
            Penninx,B.W., Smit,J.H., Curhan,G., Mudgal,P., Plenge,R.M.,
            Portas,L., Persico,I., Kirin,M., Wilson,J.F., Mateo Leach,I., van
            Gilst,W.H., Goel,A., Ongen,H., Hofman,A., Rivadeneira,F.,
            Uitterlinden,A.G., Imboden,M., von Eckardstein,A., Cucca,F.,
            Nagaraja,R., Piras,M.G., Nauck,M., Schurmann,C., Budde,K.,
            Ernst,F., Farrington,S.M., Theodoratou,E., Prokopenko,I.,
            Stumvoll,M., Jula,A., Perola,M., Salomaa,V., Shin,S.Y.,
            Spector,T.D., Sala,C., Ridker,P.M., Kahonen,M., Viikari,J.,
            Hengstenberg,C., Nelson,C.P., Meschia,J.F., Nalls,M.A., Sharma,P.,
            Singleton,A.B., Kamatani,N., Zeller,T., Burnier,M., Attia,J.,
            Laan,M., Klopp,N., Hillege,H.L., Kloiber,S., Choi,H., Pirastu,M.,
            Tore,S., Probst-Hensch,N.M., Volzke,H., Gudnason,V., Parsa,A.,
            Schmidt,R., Whitfield,J.B., Fornage,M., Gasparini,P.,
            Siscovick,D.S., Polasek,O., Campbell,H., Rudan,I., Bouatia-Naji,N.,
            Metspalu,A., Loos,R.J., van Duijn,C.M., Borecki,I.B., Ferrucci,L.,
            Gambaro,G., Deary,I.J., Wolffenbuttel,B.H., Chambers,J.C., Marz,W.,
            Pramstaller,P.P., Snieder,H., Gyllensten,U., Wright,A.F., Navis,G.,
            Watkins,H., Witteman,J.C., Sanna,S., Schipf,S., Dunlop,M.G.,
            Tonjes,A., Ripatti,S., Soranzo,N., Toniolo,D., Chasman,D.I.,
            Raitakari,O., Kao,W.H., Ciullo,M., Fox,C.S., Caulfield,M.,
            Bochud,M. and Gieger,C.
  CONSRTM   LifeLines Cohort Study; CARDIoGRAM Consortium; DIAGRAM Consortium;
            ICBP Consortium; MAGIC Consortium
  TITLE     Genome-wide association analyses identify 18 new loci associated
            with serum urate concentrations
  JOURNAL   Nat Genet 45 (2), 145-154 (2013)
   PUBMED   23263486
REFERENCE   7  (bases 1 to 3178)
  AUTHORS   Short,K.M. and Cox,T.C.
  TITLE     Subclassification of the RBCC/TRIM superfamily reveals a novel
            motif necessary for microtubule binding
  JOURNAL   J Biol Chem 281 (13), 8970-8980 (2006)
   PUBMED   16434393
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            DA509424.1, AY251386.1, DB262381.1, AK096158.1 and DB326530.1.
            
            On Nov 22, 2018 this sequence version replaced NM_025058.4.
            
            Summary: This gene encodes a protein of the tripartite motif (TRIM)
            family. The TRIM motif includes zinc-binding domains, a RING finger
            region, a B-box motif and a coiled-coil domain. TRIM46 is reported
            to be involved in the proliferation of multiple types of cancer
            cells including lung and breast cancer. It has also been shown to
            control neuronal polarity and axon specification by forming uniform
            microtubule bundles in the axon. [provided by RefSeq, May 2022].
            
            Transcript Variant: This variant (1) encodes the longest isoform
            (1).
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR1660807.256390.1,
                                           SRR1803611.63979.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA2145743, SAMEA2148874
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            coronavirus related    :: locus in the vicinity of
                                      disease-associated variant(s)
            MANE Ensembl match     :: ENST00000334634.9/ ENSP00000334657.4
            RefSeq Select criteria :: based on conservation
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-118               DA509424.1         63-180
            119-599             AY251386.1         1-481
            600-979             DB262381.1         152-531
            980-2398            AY251386.1         862-2280
            2399-3177           AK096158.1         2349-3127
            3178-3178           DB326530.1         2-2                 c
FEATURES             Location/Qualifiers
     source          1..3178
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="1"
                     /map="1q22"
     gene            1..3178
                     /gene="TRIM46"
                     /gene_synonym="GENEY; TRIFIC"
                     /note="tripartite motif containing 46"
                     /db_xref="GeneID:80128"
                     /db_xref="HGNC:HGNC:19019"
                     /db_xref="MIM:600986"
     exon            1..181
                     /gene="TRIM46"
                     /gene_synonym="GENEY; TRIFIC"
                     /inference="alignment:Splign:2.1.0"
     CDS             119..2398
                     /gene="TRIM46"
                     /gene_synonym="GENEY; TRIFIC"
                     /note="isoform 1 is encoded by transcript variant 1;
                     tripartite motif-containing protein 46; gene Y protein;
                     tripartite, fibronectin type-III and C-terminal SPRY motif
                     protein"
                     /codon_start=1
                     /product="tripartite motif-containing protein 46 isoform
                     1"
                     /protein_id="NP_079334.3"
                     /db_xref="CCDS:CCDS1097.1"
                     /db_xref="GeneID:80128"
                     /db_xref="HGNC:HGNC:19019"
                     /db_xref="MIM:600986"
                     /translation="MAEGEDMQTFTSIMDALVRISTSMKNMEKELLCPVCQEMYKQPL
                     VLPCTHNVCQACAREVLGQQGYIGHGGDPSSEPTSPASTPSTRSPRLSRRTLPKPDRL
                     DRLLKSGFGTYPGRKRGALHPQVIMFPCPACQGDVELGERGLAGLFRNLTLERVVERY
                     RQSVSVGGAILCQLCKPPPLEATKGCTECRATFCNECFKLFHPWGTQKAQHEPTLPTL
                     SFRPKGLMCPDHKEEVTHYCKTCQRLVCQLCRVRRTHSGHKITPVLSAYQALKDKLTK
                     SLTYILGNQDTVQTQICELEEAVRHTEVSGQQAKEEVSQLVRGLGAVLEEKRASLLQA
                     IEECQQERLARLSAQIQEHRSLLDGSGLVGYAQEVLKETDQPCFVQAAKQLHNRIARA
                     TEALQTFRPAASSSFRHCQLDVGREMKLLTELNFLRVPEAPVIDTQRTFAYDQIFLCW
                     RLPPHSPPAWHYTVEFRRTDVPAQPGPTRWQRREEVRGTSALLENPDTGSVYVLRVRG
                     CNKAGYGEYSEDVHLHTPPAPVLHFFLDSRWGASRERLAISKDQRAVRSVPGLPLLLA
                     ADRLLTGCHLSVDVVLGDVAVTQGRSYWACAVDPASYLVKVGVGLESKLQESFQGAPD
                     VISPRYDPDSGHDSGAEDATVEASPPFAFLTIGMGKILLGSGASSNAGLTGRDGPTAG
                     CTVPLPPRLGICLDYERGRVSFLDAVSFRGLLECPLDCSGPVCPAFCFIGGGAVQLQE
                     PVGTKPERKVTIGGFAKLD"
     exon            182..443
                     /gene="TRIM46"
                     /gene_synonym="GENEY; TRIFIC"
                     /inference="alignment:Splign:2.1.0"
     exon            444..787
                     /gene="TRIM46"
                     /gene_synonym="GENEY; TRIFIC"
                     /inference="alignment:Splign:2.1.0"
     exon            788..931
                     /gene="TRIM46"
                     /gene_synonym="GENEY; TRIFIC"
                     /inference="alignment:Splign:2.1.0"
     exon            932..1027
                     /gene="TRIM46"
                     /gene_synonym="GENEY; TRIFIC"
                     /inference="alignment:Splign:2.1.0"
     exon            1028..1281
                     /gene="TRIM46"
                     /gene_synonym="GENEY; TRIFIC"
                     /inference="alignment:Splign:2.1.0"
     exon            1282..1403
                     /gene="TRIM46"
                     /gene_synonym="GENEY; TRIFIC"
                     /inference="alignment:Splign:2.1.0"
     exon            1404..1706
                     /gene="TRIM46"
                     /gene_synonym="GENEY; TRIFIC"
                     /inference="alignment:Splign:2.1.0"
     exon            1707..2004
                     /gene="TRIM46"
                     /gene_synonym="GENEY; TRIFIC"
                     /inference="alignment:Splign:2.1.0"
     exon            2005..3178
                     /gene="TRIM46"
                     /gene_synonym="GENEY; TRIFIC"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3140..3145
                     /regulatory_class="polyA_signal_sequence"
                     /gene="TRIM46"
                     /gene_synonym="GENEY; TRIFIC"
                     /note="hexamer: AATAAA"
     polyA_site      3178
                     /gene="TRIM46"
                     /gene_synonym="GENEY; TRIFIC"
                     /note="major polyA site"
ORIGIN      
        1 gcagtgacac ctcaaccccc agccctcctc acacccccac tgggctcctg cattaagccc
       61 ggggttcgca gccgcagccg ggatcgggca cccaggggcg ggcgggcacg gtagggccat
      121 ggcagagggt gaggatatgc agaccttcac ttccatcatg gacgcactgg tccgcatcag
      181 taccagcatg aagaacatgg agaaggaact gctgtgccca gtgtgtcaag agatgtacaa
      241 gcagccactg gtgctgccct gtacccacaa cgtgtgccag gcctgtgccc gagaggtctt
      301 gggccagcag ggctacatag gacatggtgg ggaccccagc tccgagccca cctctcctgc
      361 ctccacccct tccacccgca gcccccgcct ctcccgcaga actctcccca agccagaccg
      421 cctggaccgg ctgcttaagt caggctttgg gacataccct gggaggaagc gaggtgcttt
      481 gcacccccaa gtgatcatgt tcccgtgccc agcctgccaa ggtgatgtgg agcttgggga
      541 gcggggtctg gcagggcttt tccggaacct gaccctggag cgtgtggtgg agcggtaccg
      601 ccagagtgtg agtgtgggag gtgccatcct gtgccagttg tgcaagcccc caccactaga
      661 ggccaccaag ggctgcacag agtgccgcgc caccttctgc aatgagtgct tcaagctctt
      721 ccacccctgg ggcacccaga aggcccagca tgagcccacc ctgcctaccc tctccttccg
      781 acccaagggc cttatgtgcc cagaccacaa ggaagaggtg acccactact gcaagacatg
      841 ccaacgcctg gtatgtcaac tctgccgggt gcggcgcacc cacagcgggc acaagatcac
      901 accagtgctc agtgcctacc aggccctcaa ggacaagctg acaaagagcc tgacatacat
      961 cctgggaaac caggacacgg tacagaccca gatctgtgag ctggaggagg ccgtgaggca
     1021 caccgaggtg agtggtcagc aggccaagga ggaggtgtcg cagctggtgc gggggctggg
     1081 ggctgtgctg gaggagaagc gggcatcact gcttcaggcc attgaagaat gccagcagga
     1141 gcggctggcc cgtctcagcg cccagatcca ggagcaccgg agcctgctgg atggctcagg
     1201 tctggtgggc tatgcccagg aagtacttaa ggaaacagac cagccttgct ttgtgcaagc
     1261 cgccaagcag ctgcacaaca ggattgcccg agccactgaa gccctccaga cattccggcc
     1321 agctgccagc tcctccttcc gccattgcca gctcgacgtg ggacgtgaga tgaagctgct
     1381 gacagagctt aacttcctgc gagtgcctga ggcccccgtc attgacaccc agcgcacctt
     1441 tgcctatgat cagatcttcc tgtgctggcg gctgcccccc cattcaccac ctgcctggca
     1501 ctataccgtt gagttccggc gcacggatgt gcctgctcag ccaggcccca cccgctggca
     1561 gcggcgggag gaggtgaggg gcaccagtgc cctgcttgag aaccccgaca cgggctctgt
     1621 gtatgtgctg cgtgtccgcg gctgcaacaa ggccggctac ggcgaataca gtgaagatgt
     1681 gcacctgcac acgcccccgg cacctgtcct gcacttcttc ctcgatagcc gctggggcgc
     1741 aagccgagag cggctggcta tcagcaagga ccagcgagca gtacggagtg ttccagggct
     1801 gcccctgctg ctggctgctg accggctgct gaccggctgc cacctgagtg tggatgtggt
     1861 cctgggcgac gtggctgtga cccagggccg cagctactgg gcctgcgccg tagacccagc
     1921 ctcctacttg gtcaaggtgg gcgtcgggct ggagagcaag cttcaagaaa gtttccaggg
     1981 tgcccccgat gtgatcagcc ccaggtacga cccggacagc gggcacgaca gcggtgccga
     2041 ggatgccaca gtggaggcgt cgccaccctt cgctttccta accattggca tgggcaagat
     2101 cctgctgggg tcgggggcaa gctcaaacgc agggctgaca gggagggatg gccccacagc
     2161 cggctgcaca gtgcccctgc caccccgcct gggcatctgc ctggactatg agcggggccg
     2221 ggtttccttc ctggatgctg tttccttccg tgggctcttg gagtgccccc tggactgctc
     2281 agggcctgtg tgccctgcct tttgcttcat cgggggtggc gcagtacagc tccaggagcc
     2341 agtgggcact aagcctgaga ggaaagtcac cattgggggc ttcgccaagc tggactgagc
     2401 cttccaggcc cctcatgcag acctggggtc ctcctgggcc ctggccccca aacctcttgg
     2461 cacccggttg ttaccccctg gcagcttctc ccccaaactc tcctaccatg tggccctgct
     2521 ccttctcccg tgtctgtctt cccacagttt tctcttgacc caggggctct cttctgccca
     2581 cctctctgga tggcccccgt tctctccatt gcttgttagc caggccccca cccccactga
     2641 gtctgcccta tgacctgcct ttggcatgtt acccaagcca tggagagagc cccttctcca
     2701 tccctgtcct gtgcccccca ggctgattgg gagggagggc acctggaaca ctgggcatga
     2761 tctccagctc tgcccttgcc ctgccaagct ccctgccctg ttgatgctga actacagcct
     2821 tgggacaggc aggctttggg gctggacgct gtccaggcat tcctggtgag gggaagggga
     2881 ccctgtcatc ctgctttatt tatttgggtc ccaacacccc gcagccgcat gccccttatg
     2941 tccctcttct ccctcttgca tgctttacct gtcccacacc catgccaatg tgccaagtct
     3001 cccttgggga cccagctgag tctgggtgtt cccattgggt tgggccaggc aaggcctctg
     3061 gtgcccgctg ccgtccccct gcagtgggct ctgctaggcc tgtgctgagc aacagctgtt
     3121 attgtcatgg tttataaaca ataaactgtg atgccaggca catctctgcc ttccctga
//
