LOCUS       NM_001193483            4354 bp    mRNA    linear   PRI 12-NOV-2024
DEFINITION  Homo sapiens LIM zinc finger domain containing 1 (LIMS1),
            transcript variant 5, mRNA.
ACCESSION   NM_001193483
VERSION     NM_001193483.3
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 4354)
  AUTHORS   Caliskan,Y., Ozluk,Y., Kurashima,K., Mirioglu,S., Dirim,A.B.,
            Hurdogan,O., Oto,O.A., Syn,M., Nazzal,M., Jain,A., Edwards,J.,
            Yazici,H. and Lentine,K.L.
  TITLE     LIM Zinc Finger Domain Containing 1 Risk Genotype of Recipient Is
            Associated with Renal Tubular Inflammation in Kidney
            Transplantation
  JOURNAL   Genes (Basel) 15 (6), 773 (2024)
   PUBMED   38927709
  REMARK    GeneRIF: LIM Zinc Finger Domain Containing 1 Risk Genotype of
            Recipient Is Associated with Renal Tubular Inflammation in Kidney
            Transplantation.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4354)
  AUTHORS   Li,Y., Wang,S., Li,G., Gao,C., Cui,Z., Cong,M., Hu,J., Zhang,M.,
            Jin,X., Sun,H. and Kong,D.
  TITLE     The RNA-binding protein RBMS3 inhibits the progression of colon
            cancer by regulating the stability of LIMS1 mRNA
  JOURNAL   Cancer Med 13 (7), e7129 (2024)
   PUBMED   38618967
  REMARK    GeneRIF: The RNA-binding protein RBMS3 inhibits the progression of
            colon cancer by regulating the stability of LIMS1 mRNA.
REFERENCE   3  (bases 1 to 4354)
  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   4  (bases 1 to 4354)
  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   5  (bases 1 to 4354)
  AUTHORS   Fukuda,K., Lu,F. and Qin,J.
  TITLE     Molecular basis for Ras suppressor-1 binding to PINCH-1 in focal
            adhesion assembly
  JOURNAL   J Biol Chem 296, 100685 (2021)
   PUBMED   33891945
  REMARK    GeneRIF: Molecular basis for Ras suppressor-1 binding to PINCH-1 in
            focal adhesion assembly.
REFERENCE   6  (bases 1 to 4354)
  AUTHORS   Scanlan,M.J., Gordan,J.D., Williamson,B., Stockert,E., Bander,N.H.,
            Jongeneel,V., Gure,A.O., Jager,D., Jager,E., Knuth,A., Chen,Y.T.
            and Old,L.J.
  TITLE     Antigens recognized by autologous antibody in patients with
            renal-cell carcinoma
  JOURNAL   Int J Cancer 83 (4), 456-464 (1999)
   PUBMED   10508479
REFERENCE   7  (bases 1 to 4354)
  AUTHORS   Gubin,A.N., Njoroge,J.M., Bouffard,G.G. and Miller,J.L.
  TITLE     Gene expression in proliferating human erythroid cells
  JOURNAL   Genomics 59 (2), 168-177 (1999)
   PUBMED   10409428
REFERENCE   8  (bases 1 to 4354)
  AUTHORS   Tu,Y., Li,F., Goicoechea,S. and Wu,C.
  TITLE     The LIM-only protein PINCH directly interacts with integrin-linked
            kinase and is recruited to integrin-rich sites in spreading cells
  JOURNAL   Mol Cell Biol 19 (3), 2425-2434 (1999)
   PUBMED   10022929
REFERENCE   9  (bases 1 to 4354)
  AUTHORS   Tu,Y., Li,F. and Wu,C.
  TITLE     Nck-2, a novel Src homology2/3-containing adaptor protein that
            interacts with the LIM-only protein PINCH and components of growth
            factor receptor kinase-signaling pathways
  JOURNAL   Mol Biol Cell 9 (12), 3367-3382 (1998)
   PUBMED   9843575
REFERENCE   10 (bases 1 to 4354)
  AUTHORS   Rearden,A.
  TITLE     A new LIM protein containing an autoepitope homologous to
            'senescent cell antigen'
  JOURNAL   Biochem Biophys Res Commun 201 (3), 1124-1131 (1994)
   PUBMED   7517666
  REMARK    Erratum:[Biochem Biophys Res Commun 2001 Apr 13;282(4):1074]
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AC012487.12 and AC010095.6.
            
            On Jul 16, 2019 this sequence version replaced NM_001193483.2.
            
            Summary: The protein encoded by this gene is an adaptor protein
            which contains five LIM domains, or double zinc fingers. The
            protein is likely involved in integrin signaling through its LIM
            domain-mediated interaction with integrin-linked kinase, found in
            focal adhesion plaques. It is also thought to act as a bridge
            linking integrin-linked kinase to NCK adaptor protein 2, which is
            involved in growth factor receptor kinase signaling pathways. Its
            localization to the periphery of spreading cells also suggests that
            this protein may play a role in integrin-mediated cell adhesion or
            spreading. Several transcript variants encoding different isoforms
            have been found for this gene. [provided by RefSeq, Jul 2010].
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on 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 :: SRR14038196.237868.1,
                                           SRR14038195.1845870.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000544547.6/ ENSP00000437912.1
            RefSeq Select criteria :: based on manual assertion, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-125               AC012487.12        73840-73964
            126-285             AC010095.6         44372-44531
            286-352             AC010095.6         55548-55614
            353-473             AC010095.6         57092-57212
            474-623             AC010095.6         57647-57796
            624-774             AC010095.6         60645-60795
            775-867             AC010095.6         61373-61465
            868-916             AC010095.6         62746-62794
            917-992             AC010095.6         65462-65537
            993-4354            AC010095.6         68652-72013
FEATURES             Location/Qualifiers
     source          1..4354
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="2"
                     /map="2q12.3"
     gene            1..4354
                     /gene="LIMS1"
                     /gene_synonym="PINCH; PINCH-1; PINCH1"
                     /note="LIM zinc finger domain containing 1"
                     /db_xref="GeneID:3987"
                     /db_xref="HGNC:HGNC:6616"
                     /db_xref="MIM:602567"
     exon            1..125
                     /gene="LIMS1"
                     /gene_synonym="PINCH; PINCH-1; PINCH1"
                     /inference="alignment:Splign:2.1.0"
     CDS             94..1107
                     /gene="LIMS1"
                     /gene_synonym="PINCH; PINCH-1; PINCH1"
                     /note="isoform d is encoded by transcript variant 5; LIM
                     and senescent cell antigen-like-containing domain protein
                     1; renal carcinoma antigen NY-REN-48; LIM and senescent
                     cell antigen-like domains 1; LIM-type zinc finger domains
                     1; particularly interesting new Cys-His protein 1"
                     /codon_start=1
                     /product="LIM and senescent cell antigen-like-containing
                     domain protein 1 isoform d"
                     /protein_id="NP_001180412.1"
                     /db_xref="CCDS:CCDS54382.1"
                     /db_xref="GeneID:3987"
                     /db_xref="HGNC:HGNC:6616"
                     /db_xref="MIM:602567"
                     /translation="MLGVAAGMTHSNMANALASATCERCKGGFAPAEKIVNSNGELYH
                     EQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFAPCCHQCGEFIIGRVIKAMNNSW
                     HPECFRCDLCQEVLADIGFVKNAGRHLCRPCHNREKARGLGKYICQKCHAIIDEQPLI
                     FKNDPYHPDHFNCANCGKELTADARELKGELYCLPCHDKMGVPICGACRRPIEGRVVN
                     AMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYNQLFGDVCFHCNRVIEGDVV
                     SALNKAWCVNCFACSTCNTKLTLKNKFVEFDMKPVCKKCYEKFPLELKKRLKKLAETL
                     GRK"
     exon            126..285
                     /gene="LIMS1"
                     /gene_synonym="PINCH; PINCH-1; PINCH1"
                     /inference="alignment:Splign:2.1.0"
     exon            286..352
                     /gene="LIMS1"
                     /gene_synonym="PINCH; PINCH-1; PINCH1"
                     /inference="alignment:Splign:2.1.0"
     exon            353..473
                     /gene="LIMS1"
                     /gene_synonym="PINCH; PINCH-1; PINCH1"
                     /inference="alignment:Splign:2.1.0"
     exon            474..623
                     /gene="LIMS1"
                     /gene_synonym="PINCH; PINCH-1; PINCH1"
                     /inference="alignment:Splign:2.1.0"
     exon            624..774
                     /gene="LIMS1"
                     /gene_synonym="PINCH; PINCH-1; PINCH1"
                     /inference="alignment:Splign:2.1.0"
     exon            775..867
                     /gene="LIMS1"
                     /gene_synonym="PINCH; PINCH-1; PINCH1"
                     /inference="alignment:Splign:2.1.0"
     exon            868..916
                     /gene="LIMS1"
                     /gene_synonym="PINCH; PINCH-1; PINCH1"
                     /inference="alignment:Splign:2.1.0"
     exon            917..992
                     /gene="LIMS1"
                     /gene_synonym="PINCH; PINCH-1; PINCH1"
                     /inference="alignment:Splign:2.1.0"
     exon            993..4354
                     /gene="LIMS1"
                     /gene_synonym="PINCH; PINCH-1; PINCH1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1945..1950
                     /regulatory_class="polyA_signal_sequence"
                     /gene="LIMS1"
                     /gene_synonym="PINCH; PINCH-1; PINCH1"
                     /note="hexamer: AATATA"
     polyA_site      1968
                     /gene="LIMS1"
                     /gene_synonym="PINCH; PINCH-1; PINCH1"
                     /note="major polyA site"
     regulatory      2314..2319
                     /regulatory_class="polyA_signal_sequence"
                     /gene="LIMS1"
                     /gene_synonym="PINCH; PINCH-1; PINCH1"
                     /note="hexamer: TATAAA"
     polyA_site      2338
                     /gene="LIMS1"
                     /gene_synonym="PINCH; PINCH-1; PINCH1"
     regulatory      2431..2436
                     /regulatory_class="polyA_signal_sequence"
                     /gene="LIMS1"
                     /gene_synonym="PINCH; PINCH-1; PINCH1"
                     /note="hexamer: AATAAA"
     polyA_site      2454
                     /gene="LIMS1"
                     /gene_synonym="PINCH; PINCH-1; PINCH1"
     regulatory      2613..2618
                     /regulatory_class="polyA_signal_sequence"
                     /gene="LIMS1"
                     /gene_synonym="PINCH; PINCH-1; PINCH1"
                     /note="hexamer: ATTAAA"
     polyA_site      2644
                     /gene="LIMS1"
                     /gene_synonym="PINCH; PINCH-1; PINCH1"
ORIGIN      
        1 agtagccggc cgcggcggcg agggactagg acgcggctgg agcggcgccg ggagacgagg
       61 ggctgagaga cggcggcggc cgaaagcgga gagatgctgg gcgtggcggc cgggatgacc
      121 cacagcaaca tggccaacgc cctggccagc gccacttgcg agcgctgcaa gggcggcttt
      181 gcgcccgctg agaagatcgt gaacagtaat ggggagctgt accatgagca gtgtttcgtg
      241 tgcgctcagt gcttccagca gttcccagaa ggactcttct atgagtttga aggaagaaag
      301 tactgtgaac atgactttca gatgctcttt gccccttgct gtcatcagtg tggtgaattc
      361 atcattggcc gagttatcaa agccatgaat aacagctggc atccggagtg cttccgctgt
      421 gacctctgcc aggaagttct ggcagatatc gggtttgtca agaatgctgg gagacacctg
      481 tgtcgcccct gtcataatcg tgagaaagcc agaggccttg ggaaatacat ctgccagaaa
      541 tgccatgcta tcatcgatga gcagcctctg atattcaaga acgaccccta ccatccagac
      601 catttcaact gcgccaactg cgggaaggag ctgactgccg atgcacggga gctgaaaggg
      661 gagctatact gcctcccatg ccatgataaa atgggggtcc ccatctgtgg tgcttgccga
      721 cggcccatcg aagggcgcgt ggtgaacgct atgggcaagc agtggcatgt ggagcatttt
      781 gtttgtgcca agtgtgagaa accctttctt ggacatcgcc attatgagag gaaaggcctg
      841 gcatattgtg aaactcacta taaccagcta tttggtgatg tttgcttcca ctgcaatcgt
      901 gttatagaag gtgatgtggt ctctgctctt aataaggcct ggtgcgtgaa ctgctttgcc
      961 tgttctacct gcaacactaa attaacactc aagaataagt ttgtggagtt tgacatgaag
     1021 ccagtctgta agaagtgcta tgagaaattt ccattggagc tgaagaaaag acttaagaaa
     1081 ctagctgaga ccttaggaag gaaataagtt cctttatttt ttcttttcta tgcaagataa
     1141 gagattacca acattacttg tcttgatcta cccatattta aagctatatc tcaaagcagt
     1201 tgagagaaga ggacctatat gaatggtttt atgtcatttt tttaattaaa aaagaaaaat
     1261 tcatataatc gtgtttaaaa cacaaatgaa gtcagtattt gcctttgtta acccttatcc
     1321 atttgttgac atgtagactg tttacaaaaa aaaaacacat ggttaaatgt taaattttaa
     1381 ttaaggcccc caaaaattaa atataacttt ttaaaatgaa aggagtcacc ttttacatga
     1441 ctcaggtgaa aaaacagtat aaacattaat ttactttgtg ttcaaaagaa aattccaact
     1501 gctgttgggg aaggacacag aaaagaaaaa taaccaccca agaaaaacaa aaacaagaaa
     1561 aacaaatctt atacaatctt agtatattta tcaaactagt agctagaaag tgaatatgca
     1621 cattactaag acaaaaaaca agtgtaattc agaactactt gatttttttt agttaaatgc
     1681 aataattatt atgcttagtt ttataacctg ctctccttgt gaattcttcc ttcaaatgat
     1741 tacttaacgc agtagtaata gctagctgta ggatgtcctt taaatttttg tgcaaaaaaa
     1801 aatttatacc aggtatttgg aaatatactt tacaatattg gaaaatgaag tatttttaat
     1861 gtattacagc aattatgttt ctaagcttaa tgttaagcat gtagtcttag aataggacat
     1921 gaaattaaat tgtatgtagc ttggaatata ttgcttcaga aaactgaatg tgtatgtcgg
     1981 tcatattgcc tttataacca tgctaatatc tatgctttat acatactcaa acttgccttg
     2041 ccttaaaaac atacatacta catacttaaa tcaggaattc tagccatctc acagaatacc
     2101 aactaaaact aagtgcattg agatctgaga ttggtaaacc cagattcatt taccacagct
     2161 gtaattaagt ttttagaaac tattctcttt ttggggaaat ccattgaagt taatttctgt
     2221 tatcttatta gaagaaaatg atgttgatat gtgtttcaga ttttccattt gaaatcttat
     2281 aattaatttg atttatttac tgtaagtagg aggtataaat gacactctta aattggaagg
     2341 aggggtgttt tagtgtctgt tttaggtcaa aattagtgat tctattttta tcaaaagttt
     2401 tatcctgaag tttcaggacc actcttcctt aataaacttg ttaatggaaa gcgagcttta
     2461 tgaacattta aaaatgttgc tgctgctttg ttgcttaaaa agaaagttgc caagagagac
     2521 ttcttaggga aaatatttgg gttttttttc caaaaattgc tgaaatattg ttttgccatt
     2581 tttaaaaagt ctcaggttat taccactctg ccattaaata tttgtatgcc tgcattttta
     2641 aaaattctgt gcatgtactt tatggagtac attctatttt tgttttcaga taccctacaa
     2701 ccaatttttt ttagtaatct tttagaattg aaattatcat aaatgatcga gaataatcat
     2761 cacatagttt aagattgtat atgttgagta gtttaaaaca atctttgcat tttacagtaa
     2821 gaatcaaagt cccttcagtg tgcctttgtc agctaatatg tgaccagcaa tgacaacctt
     2881 gggagtattt attaaatatt atgctatgaa tataggcaac acagaacagg gtttgcagta
     2941 tagcgtcttg atgctaaatt ctcatatacc tctacacgag aaatatggag gagaaaaaca
     3001 agcatttaca tatattcttc gtcactttga agatgcatgg cctgaactcg actgcttgtg
     3061 tttgtttaca tatcaggcat acccaggcat ctcctgcagc cagaggttcc attgctgtct
     3121 ttgctcagtc ctcttttaaa atatgaatta gtggacaggc acggtgcctc acacctgtaa
     3181 tcccagcact ttgggaggtc gaggcaggtg gatcacgagg tcaggagatc aagaccatcc
     3241 tggctaccac tgaaacccca tctctactac aaaaaaatta gccgggcgtg gtggcgggca
     3301 cctgcagtcc cagctactcg ggaggctgag gcaggagaat ggtgggaacc cgggaggcag
     3361 agcttgcagt gagccaagat cacgccactg cactccagcc tgggcaacag agcaagactc
     3421 tgtctcaaaa aaaataaata aataaattat gaatgagtat tttctagaaa ttcaacttgc
     3481 taagcctgta atacttaagg gtagtttatc tagatacagt actttcttcc ctgataagta
     3541 gtatcattgg agcccttagg tataggagaa gaggaagaag tttaaaaagt gtaagtgggc
     3601 cgggcgtggt ggctcatgcc tgtaatccca gcactttggg aggccgaggg gggcggatca
     3661 cgaggtcagg agatccagac tatcctggct aacaaggtga aaccccgtct ctactaaaaa
     3721 tacaaaaaaa aacattagcc aggcgtggtg gcgggcgctt gtagtcccag ctactcggga
     3781 ggctgaggta ggagaatggc ttgaacccag gaggcggagc ttgcagtgag ccgagattgc
     3841 accactgcac tccagcctgg gcgacagagc aagactccgt ctcaaaaaaa aaaaaaaagt
     3901 gtaagtggat taaaagagaa acttggtcta gttcataata tttttaatag ggctttccct
     3961 ggctgctgga aaacttaggc cagtaagcat ctctttgttt aaagtcctac aagacaattt
     4021 gaaataattc attgttcatg ccaaaattct aagtactgtt tttcttagca agtgtaacat
     4081 aatcaggaac aatgggtaca agtaaaacat tctttggatg atattcaaag ccttattagc
     4141 actgcacctg aataataggt cattttgcct cactcatttg ccaaagtagc catttctaag
     4201 ttaaggaagt ttttagatag gctcatagcc ttgtatttcg ttttagattg taagctcaat
     4261 ggcagggata ctatattggt aattatgttt tcatatagca accaccacag tatattcttg
     4321 gtgcttaata aatgtttata attgttaaca ataa
//
