LOCUS       NM_148893               4479 bp    mRNA    linear   PRI 27-SEP-2024
DEFINITION  Homo sapiens small VCP interacting protein (SVIP), transcript
            variant 3, mRNA.
ACCESSION   NM_148893 XM_930226 XM_934479 XM_934482 XM_941973 XM_945595
            XM_945597
VERSION     NM_148893.3
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 4479)
  AUTHORS   Arici,A. and Erdemir,F.
  TITLE     A Determination of p97/VCP (Valosin Containing Protein) and SVIP
            (Small VCP Interacting Protein) Expression Patterns in Human Testis
  JOURNAL   Medicina (Kaunas) 59 (6), 1079 (2023)
   PUBMED   37374283
  REMARK    GeneRIF: A Determination of p97/VCP (Valosin Containing Protein)
            and SVIP (Small VCP Interacting Protein) Expression Patterns in
            Human Testis.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4479)
  AUTHORS   Atalay Sahar,E. and Ballar Kirmizibayrak,P.
  TITLE     Differential Expression and Function of SVIP in Breast Cancer Cell
            Lines and In Silico Analysis of Its Expression and Prognostic
            Potential in Human Breast Cancer
  JOURNAL   Cells 12 (10), 1362 (2023)
   PUBMED   37408196
  REMARK    GeneRIF: Differential Expression and Function of SVIP in Breast
            Cancer Cell Lines and In Silico Analysis of Its Expression and
            Prognostic Potential in Human Breast Cancer.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 4479)
  AUTHORS   Johnson,A.E., Orr,B.O., Fetter,R.D., Moughamian,A.J.,
            Primeaux,L.A., Geier,E.G., Yokoyama,J.S., Miller,B.L. and
            Davis,G.W.
  TITLE     SVIP is a molecular determinant of lysosomal dynamic stability,
            neurodegeneration and lifespan
  JOURNAL   Nat Commun 12 (1), 513 (2021)
   PUBMED   33479240
  REMARK    GeneRIF: SVIP is a molecular determinant of lysosomal dynamic
            stability, neurodegeneration and lifespan.
            Publication Status: Online-Only
REFERENCE   4  (bases 1 to 4479)
  AUTHORS   Luck,K., Kim,D.K., Lambourne,L., Spirohn,K., Begg,B.E., Bian,W.,
            Brignall,R., Cafarelli,T., Campos-Laborie,F.J., Charloteaux,B.,
            Choi,D., Cote,A.G., Daley,M., Deimling,S., Desbuleux,A., Dricot,A.,
            Gebbia,M., Hardy,M.F., Kishore,N., Knapp,J.J., Kovacs,I.A.,
            Lemmens,I., Mee,M.W., Mellor,J.C., Pollis,C., Pons,C.,
            Richardson,A.D., Schlabach,S., Teeking,B., Yadav,A., Babor,M.,
            Balcha,D., Basha,O., Bowman-Colin,C., Chin,S.F., Choi,S.G.,
            Colabella,C., Coppin,G., D'Amata,C., De Ridder,D., De Rouck,S.,
            Duran-Frigola,M., Ennajdaoui,H., Goebels,F., Goehring,L., Gopal,A.,
            Haddad,G., Hatchi,E., Helmy,M., Jacob,Y., Kassa,Y., Landini,S.,
            Li,R., van Lieshout,N., MacWilliams,A., Markey,D., Paulson,J.N.,
            Rangarajan,S., Rasla,J., Rayhan,A., Rolland,T., San-Miguel,A.,
            Shen,Y., Sheykhkarimli,D., Sheynkman,G.M., Simonovsky,E., Tasan,M.,
            Tejeda,A., Tropepe,V., Twizere,J.C., Wang,Y., Weatheritt,R.J.,
            Weile,J., Xia,Y., Yang,X., Yeger-Lotem,E., Zhong,Q., Aloy,P.,
            Bader,G.D., De Las Rivas,J., Gaudet,S., Hao,T., Rak,J.,
            Tavernier,J., Hill,D.E., Vidal,M., Roth,F.P. and Calderwood,M.A.
  TITLE     A reference map of the human binary protein interactome
  JOURNAL   Nature 580 (7803), 402-408 (2020)
   PUBMED   32296183
REFERENCE   5  (bases 1 to 4479)
  AUTHORS   Jia,D., Wang,Y.Y., Wang,P., Huang,Y., Liang,D.Y., Wang,D.,
            Cheng,C., Zhang,C., Guo,L., Liang,P., Wang,Y., Jia,Y. and Li,C.
  TITLE     SVIP alleviates CCl4-induced liver fibrosis via activating
            autophagy and protecting hepatocytes
  JOURNAL   Cell Death Dis 10 (2), 71 (2019)
   PUBMED   30683843
  REMARK    GeneRIF: Overexpression of SVIP can protect HepG2 cells from the
            toxicity of CCl4, which could be enhanced by starvation.
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 4479)
  AUTHORS   Wang,Y., Ballar,P., Zhong,Y., Zhang,X., Liu,C., Zhang,Y.J.,
            Monteiro,M.J., Li,J. and Fang,S.
  TITLE     SVIP induces localization of p97/VCP to the plasma and lysosomal
            membranes and regulates autophagy
  JOURNAL   PLoS One 6 (8), e24478 (2011)
   PUBMED   21909394
  REMARK    GeneRIF: SVIP plays a regulatory role in p97 subcellular
            localization and is a novel regulator of autophagy.
REFERENCE   7  (bases 1 to 4479)
  AUTHORS   Ballar,P. and Fang,S.
  TITLE     Regulation of ER-associated degradation via p97/VCP-interacting
            motif
  JOURNAL   Biochem Soc Trans 36 (Pt 5), 818-822 (2008)
   PUBMED   18793143
REFERENCE   8  (bases 1 to 4479)
  AUTHORS   Ballar,P., Zhong,Y., Nagahama,M., Tagaya,M., Shen,Y. and Fang,S.
  TITLE     Identification of SVIP as an endogenous inhibitor of endoplasmic
            reticulum-associated degradation
  JOURNAL   J Biol Chem 282 (47), 33908-33914 (2007)
   PUBMED   17872946
  REMARK    GeneRIF: SVIP is an endogenous inhibitor of ERAD that acts through
            regulating the assembly of the gp78-p97/VCP-Derlin1 complex.
REFERENCE   9  (bases 1 to 4479)
  AUTHORS   Nagahama,M., Suzuki,M., Hamada,Y., Hatsuzawa,K., Tani,K.,
            Yamamoto,A. and Tagaya,M.
  TITLE     SVIP is a novel VCP/p97-interacting protein whose expression causes
            cell vacuolation
  JOURNAL   Mol Biol Cell 14 (1), 262-273 (2003)
   PUBMED   12529442
REFERENCE   10 (bases 1 to 4479)
  AUTHORS   Adams,M.D., Kerlavage,A.R., Fleischmann,R.D., Fuldner,R.A.,
            Bult,C.J., Lee,N.H., Kirkness,E.F., Weinstock,K.G., Gocayne,J.D.,
            White,O. et al.
  TITLE     Initial assessment of human gene diversity and expression patterns
            based upon 83 million nucleotides of cDNA sequence
  JOURNAL   Nature 377 (6547 Suppl), 3-174 (1995)
   PUBMED   7566098
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AF527534.1 and AC006299.1.
            
            On Nov 24, 2018 this sequence version replaced NM_148893.2.
            
            Summary: Endoplasmic reticulum-associated degradation (ERAD) is the
            pathway by which misfolded proteins in the endoplasmic reticulum
            are targeted to the proteasome for degradation. Multiple
            specialized proteins interact with one another during ERAD to
            complete this process. The protein encoded by this gene is an
            inhibitor of ERAD, functioning to disrupt the interaction of these
            protein components. This downregulation of ERAD may be needed to
            protect the cell from overactive protein degradation. Several
            transcript variants encoding different isoforms have been found for
            this gene. [provided by RefSeq, Feb 2016].
            
            Transcript Variant: This variant (3) differs in the 5' UTR and
            coding sequence compared to variant 1. The resulting isoform (3)
            has a shorter and distinct N-terminus compared to 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 :: SRR1660807.124416.1,
                                           SRR1660805.245723.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1968832, SAMEA1968968
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000354193.5/ ENSP00000346130.4
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-1354              AF527534.1         36-1389
            1355-4479           AC006299.1         105519-108643
FEATURES             Location/Qualifiers
     source          1..4479
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="11"
                     /map="11p14.3"
     gene            1..4479
                     /gene="SVIP"
                     /note="small VCP interacting protein"
                     /db_xref="GeneID:258010"
                     /db_xref="HGNC:HGNC:25238"
                     /db_xref="MIM:620965"
     exon            1..107
                     /gene="SVIP"
                     /inference="alignment:Splign:2.1.0"
     CDS             54..287
                     /gene="SVIP"
                     /note="isoform 3 is encoded by transcript variant 3; small
                     VCP/p97-interacting protein"
                     /codon_start=1
                     /product="small VCP/p97-interacting protein isoform 3"
                     /protein_id="NP_683691.1"
                     /db_xref="CCDS:CCDS41627.1"
                     /db_xref="GeneID:258010"
                     /db_xref="HGNC:HGNC:25238"
                     /db_xref="MIM:620965"
                     /translation="MGLCFPCPGESAPPTPDLEEKRAKLAEAAERRQKEAASRGILDV
                     QSVQEKRKKKEKIEKQIATSGPPPEGGLRWTVS"
     exon            108..158
                     /gene="SVIP"
                     /inference="alignment:Splign:2.1.0"
     exon            159..272
                     /gene="SVIP"
                     /inference="alignment:Splign:2.1.0"
     exon            273..4479
                     /gene="SVIP"
                     /inference="alignment:Splign:2.1.0"
     regulatory      471..476
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SVIP"
                     /note="hexamer: ATTAAA"
     polyA_site      492
                     /gene="SVIP"
                     /note="major polyA site"
     regulatory      2775..2780
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SVIP"
                     /note="hexamer: AATATA"
     polyA_site      2800
                     /gene="SVIP"
                     /note="major polyA site"
     regulatory      2981..2986
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SVIP"
                     /note="hexamer: TATAAA"
     polyA_site      3001
                     /gene="SVIP"
     polyA_site      3108
                     /gene="SVIP"
     regulatory      3302..3307
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SVIP"
                     /note="hexamer: ACTAAA"
     polyA_site      3328
                     /gene="SVIP"
     regulatory      4458..4463
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SVIP"
                     /note="hexamer: AATAAA"
     polyA_site      4479
                     /gene="SVIP"
ORIGIN      
        1 agcgccgcct ggcctgggcc ggacccggtc agggttctca agctgtcgtc cctatggggc
       61 tgtgttttcc ttgtcccggg gagtccgcgc ctcccacgcc ggacctggaa gagaaaagag
      121 caaagcttgc agaggctgca gagagaagac aaaaagaggc tgcatctcgg ggaattttag
      181 atgttcaatc tgtgcaagaa aagagaaaga aaaaggaaaa aatagaaaaa caaattgcta
      241 catccgggcc cccaccagaa ggtggactta ggtggacagt ttcataaagc ataacatgag
      301 tagaagaatc tactgccaat aactgtttat tatctgcaat caagtgggct tcatcaattt
      361 aatttcttct ctttgagtaa atgaagattc agactttgta atattattgc ccttaagtgc
      421 aatgctaaaa aaacgttgat tttcaagctt agagaatggc tagacttttc attaaatact
      481 gattttccta catttgctct tctgcagtta gtgggtgatt tgctattttt cttagtagtt
      541 aaaaaatgga actaaatagt gaatatacat acactgcatg taaacattct gcatatacct
      601 ctaagattaa aattcgcagt tgtcttttca tcctttataa aatgatctaa ctacttatat
      661 ttgtgctgca tcgcgttaca tctgttttta tttcactatg aagatgtttg attaaactta
      721 tggacttagt gcctttaaac tgatcatcag ggagaatctt gaaaaaatca tttgaagggc
      781 tgatgtgaag gagcactgta aatttttata acttagtaat gagtattctt aggcagatgt
      841 aaaatttttt ccaatttatt tttatttatg tagcttataa aattaacata ccctgtttta
      901 ctttatgata aaggattttt tgtttgctga atttaaaatt atatattagt gataccatca
      961 gagggcagtg atgttctatt gtatattaaa ttcagctctg taaggatctt tgtagtaatt
     1021 gaatgagtta aactaataat ctggatgggt tataatgagt agtaatatat ttgtccatat
     1081 ttcataagta gtgttaatct tgtgtactta ttagagaacg atcataagat ttatacagat
     1141 gtgaaactgc gaaggcaagt atgaatgtat gaaaaaaaca tgtaggtact gtacttacaa
     1201 aaggtctact tcagatataa aaatattagg taattctata caatgcatag tcataaacct
     1261 taacattttt gttcattaga aacatgaatt ttatagcatt ttttgtttct cctatataat
     1321 acactgaaat aaaagaattt gtgttagcta ttaaggctga tagctctttt aaatggcaag
     1381 gccacatgtt gagccctaaa ttaaaatttg cagatattaa gtgctaatag aaattttaag
     1441 ttaaatcgac caagttcact tgctttacac aaaggaaact gagccactat cttcatctac
     1501 ccctccaaca aaaattatgt tatactgcag tgtattgtac atgttaattt ttaaaagttt
     1561 gaactattat ataatacagg tctcttgact tctcatggaa aaattatttt ttctattatg
     1621 gtgtgaaata ttgtgtgaat atctaggcaa aacataacaa tttggctcaa ttttcttctt
     1681 tagaggattc gtgctgtttt tgttcataaa gggtagtgaa atcattgaac tatattttag
     1741 aatgaaaatt tttgatttta ttaaaatgat tttttcaagg cagaaagtaa aaggaatgat
     1801 tgatagcgga gtgcatatag agctagagca tatcatcctt gaactctgca aatcctttct
     1861 tccattttaa tatagcaaga acaattttgt ctttactaca tcttaaagaa ttagaacttg
     1921 ggttggtgta agtgacttac ttccagggaa tcatgcccta tttctaccag caggtcatac
     1981 ccaaatgtca cactatctat tgttaaccat gaatgatatt cagatctatt acttttcgtg
     2041 aaaagtggaa catgttactt ccaaccatgg cctgtcaccg tgagtgtgat cagctttctc
     2101 caaaaccaca tgggtcgcag gagctaaggg gtggtaccca aatgttagga acagtgttag
     2161 gaaagggcaa gggaaaagaa gtgactggat gtcttatgag aaaccggtaa atgactaaaa
     2221 aaaaaagcaa atgactaaaa acatgactaa aaaattatat atatatataa tatatatatt
     2281 atatatgtgt gtatatatat acacataata tctgcaaatt ctaatttata tatgtgtgtg
     2341 tatatacaca cacacacatg cacatacaca catacgtcca gacatctccc tcataaaata
     2401 accatcagtt tctatgaaaa ccttaagtgg aagccaattt cccatagtaa ataatttagg
     2461 agaaaattat aatgcttaaa atgttgctca aacccctgac ctattactaa actataattg
     2521 gaacagtaaa atgcatatat gtaactatca tatcatgatt taaaattgct taaaccattg
     2581 ctgcttaata ctaatcaaac ttaacggctg ctaacaaaag ttgtgaatta ttacacggcc
     2641 tctttgtaac gtgctgcatg ttttttaaaa catctctgtg tttctgtttg ttccactgct
     2701 ggtatttgga atgtaattta acagttctca cacatggttt ggttataaat tctgtattgc
     2761 cttttaggga tataaatata catttttttc tatgtaaaaa ttagctttag ctgtctcttt
     2821 aacaaaattt tatctttact acatcctaaa tacttagaac ctgagttggt ggttagggaa
     2881 acctcaggaa cattttaatc acattgggat tcagaagagc aacagaacca aaggttgttt
     2941 ggtgtgttca tacaatccct ggatttatag gtggattttc tataaaggaa aaatgatgta
     3001 attagtatcc tgttttttcc taaagaaata atactatcat aaaaattctg tctatccttt
     3061 gtaccccagg aaaatggaca tgaactttga attttccctt tctccaaatg tttgactttt
     3121 tattttcact gataagcatt atgctatgtt cttagaagac aaaagcagct cttgccagtt
     3181 ttgaataatt tctgcatgaa tagaccagta agaggtaagt agccatgact gcctatatgt
     3241 gttgagacat aaggtatatt tctttaacat ctccaagcaa gcatttcaaa ttctcttaac
     3301 tactaaacat gctctaagct aattcaaata tagtattgtg gcttttttct tcaattttct
     3361 caaaagctac agacacaagg catttgtatg tataacagac tttgatgaag ttttggttcc
     3421 agtaactcaa aacactaagt ttcccatttg atatggcttt ttattgttct agtctccctc
     3481 ttctagttat gcttcatctt gcaaatattg actttgaatg tgataactat tgcctacaaa
     3541 ttaagtattc atacattact cctgtggata tcatactttt ttgttattat atcctgaatt
     3601 gcattggctt tttttggttt tgttttgttt tttgagatgg agtttcactc ttgttgccca
     3661 ggttggagtg caatggcaca atctcagctc accgcaacct ctgcctccca ggttcaagtg
     3721 attctcctgc ctcagcctcc ctagtagctg ggattgcagg catgtgccac cacgcctgac
     3781 taattttgtg tttttagtag agacagggtt tctccacgtt ggtcaggctg gtctcgaact
     3841 cctgacctca ggtgatccct gccgccttgg cctcccaaag tgctgggatt acaggcatga
     3901 gccaccgcgc ccggcctgca ttggctatat ttataatacc aaatttgtgt tgagttttga
     3961 gttaatgtct tctagttatc aaaacaggtt tgatccattc tttgcaagta cctctaactt
     4021 atctcaagtg gaactaatta gttttgcaca cagattggtg ctctctaggc tatttccctg
     4081 aaatttatct tgttacataa gtcagatatc aaggagttat gctaaactcc ttttcctatc
     4141 aaactcctaa aatgcccttt tctctgtcta tatttcttag acatagttac attataaatg
     4201 taacagatat atttaaagta ggttaatacc aagtgtctca ggtagaaaat tctcagaggt
     4261 tccacaaaaa cttctggaac taataaatga ctttagtaat cttgcagaat gaaaagtata
     4321 tgaaagtcaa ttctatgttt atatgcaagc aatgaaaaat ctgtaattga aagtgggaaa
     4381 atttaaatta caatatcaac aaataaaata tttaggaaaa ataaaactgt agacattaaa
     4441 aatgacaaaa cattgccaat aaattaagat ctaaatgaa
//
