LOCUS       NM_001290               2384 bp    mRNA    linear   PRI 28-APR-2025
DEFINITION  Homo sapiens LIM domain binding 2 (LDB2), transcript variant 1,
            mRNA.
ACCESSION   NM_001290
VERSION     NM_001290.5
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 2384)
  AUTHORS   Chu,F., Xu,X., Zhang,Y., Cai,H., Peng,J., Li,Y., Zhang,H., Liu,H.
            and Chen,X.
  TITLE     LIM-domain binding protein 2 was down-regulated by miRNA-96-5p
            inhibited the proliferation, invasion and metastasis of lung cancer
            H1299 cells
  JOURNAL   Clinics (Sao Paulo) 78, 100145 (2022)
   PUBMED   36473369
  REMARK    GeneRIF: LIM-domain binding protein 2 was down-regulated by
            miRNA-96-5p inhibited the proliferation, invasion and metastasis of
            lung cancer H1299 cells.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 2384)
  AUTHORS   Ohnishi,T., Kiyama,Y., Arima-Yoshida,F., Kadota,M., Ichikawa,T.,
            Yamada,K., Watanabe,A., Ohba,H., Tanaka,K., Nakaya,A., Horiuchi,Y.,
            Iwayama,Y., Toyoshima,M., Ogawa,I., Shimamoto-Mitsuyama,C.,
            Maekawa,M., Balan,S., Arai,M., Miyashita,M., Toriumi,K., Nozaki,Y.,
            Kurokawa,R., Suzuki,K., Yoshikawa,A., Toyota,T., Hosoya,T.,
            Okuno,H., Bito,H., Itokawa,M., Kuraku,S., Manabe,T. and
            Yoshikawa,T.
  TITLE     Cooperation of LIM domain-binding 2 (LDB2) with EGR in the
            pathogenesis of schizophrenia
  JOURNAL   EMBO Mol Med 13 (4), e12574 (2021)
   PUBMED   33656268
  REMARK    GeneRIF: Cooperation of LIM domain-binding 2 (LDB2) with EGR in the
            pathogenesis of schizophrenia.
REFERENCE   3  (bases 1 to 2384)
  AUTHORS   Zhai,D., Wang,G., Li,L., Jia,X., Zheng,G. and Yin,J.
  TITLE     [LIM-domain binding protein 2 regulated by m6A modification
            inhibits lung adenocarcinoma cell proliferation in vitro]
  JOURNAL   Nan Fang Yi Ke Da Xue Xue Bao 41 (3), 329-335 (2021)
   PUBMED   33849822
  REMARK    GeneRIF: [LIM-domain binding protein 2 regulated by m(6)A
            modification inhibits lung adenocarcinoma cell proliferation in
            vitro].
REFERENCE   4  (bases 1 to 2384)
  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 2384)
  AUTHORS   Shang,M.M., Talukdar,H.A., Hofmann,J.J., Niaudet,C., Asl,H.F.,
            Jain,R.K., Rossignoli,A., Cedergren,C., Silveira,A., Gigante,B.,
            Leander,K., de Faire,U., Hamsten,A., Ruusalepp,A., Melander,O.,
            Ivert,T., Michoel,T., Schadt,E.E., Betsholtz,C., Skogsberg,J. and
            Bjorkegren,J.L.
  TITLE     Lim domain binding 2: a key driver of transendothelial migration of
            leukocytes and atherosclerosis
  JOURNAL   Arterioscler Thromb Vasc Biol 34 (9), 2068-2077 (2014)
   PUBMED   24925974
  REMARK    GeneRIF: LDB2 was the most connected gene in a transcription factor
            regulatory network inferred from transendothelial migration of
            leukocyte and atherosclerosis module genes in coronary and carotid
            artery disease macrophages.
REFERENCE   6  (bases 1 to 2384)
  AUTHORS   DeGrado-Warren,J., Dufford,M., Chen,J., Bartel,P.L., Shattuck,D.
            and Frech,G.C.
  TITLE     Construction and characterization of a normalized yeast two-hybrid
            library derived from a human protein-coding clone collection
  JOURNAL   Biotechniques 44 (2), 265-273 (2008)
   PUBMED   18330356
REFERENCE   7  (bases 1 to 2384)
  AUTHORS   Ostendorff,H.P., Peirano,R.I., Peters,M.A., Schluter,A.,
            Bossenz,M., Scheffner,M. and Bach,I.
  TITLE     Ubiquitination-dependent cofactor exchange on LIM homeodomain
            transcription factors
  JOURNAL   Nature 416 (6876), 99-103 (2002)
   PUBMED   11882901
REFERENCE   8  (bases 1 to 2384)
  AUTHORS   Ueki,N., Seki,N., Yano,K., Ohira,M., Saito,T., Masuho,Y. and
            Muramatsu,M.
  TITLE     Isolation and chromosomal assignment of human genes encoding
            cofactor of LIM homeodomain proteins, CLIM1 and CLIM2
  JOURNAL   J Hum Genet 44 (2), 112-115 (1999)
   PUBMED   10083735
REFERENCE   9  (bases 1 to 2384)
  AUTHORS   Ueki,N., Oda,T., Kondo,M., Yano,K., Noguchi,T. and Muramatsu,M.
  TITLE     Selection system for genes encoding nuclear-targeted proteins
  JOURNAL   Nat Biotechnol 16 (13), 1338-1342 (1998)
   PUBMED   9853615
REFERENCE   10 (bases 1 to 2384)
  AUTHORS   Semina,E.V., Altherr,M.R. and Murray,J.C.
  TITLE     Cloning and chromosomal localization of two novel human genes
            encoding LIM-domain binding factors CLIM1 and CLIM2/LDB1/NLI
  JOURNAL   Mamm Genome 9 (11), 921-924 (1998)
   PUBMED   9799849
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from DA166898.1, AF064492.1 and
            DB352456.1.
            
            On Nov 22, 2018 this sequence version replaced NM_001290.4.
            
            Summary: The protein encoded by this gene belongs to the LIM-domain
            binding family. Members of this family are characterized by a
            conserved nuclear localization sequence, an amino-terminal
            homodimerization domain and a carboxy-terminal LIM interaction
            domain. These proteins function as adapter molecules to allow
            assembly of transcriptional regulatory complexes. Genetic
            association studies suggest functions for this gene in
            rhegmatogenous retinal detachment and coronary artery disease.
            Alternative splicing results in multiple transcript variants.
            [provided by RefSeq, Jan 2015].
            
            Transcript Variant: This variant (1) encodes the longest isoform
            (a).
            
            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 :: SRR1803615.192213.1,
                                           SRR1660803.60972.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000304523.10/ ENSP00000306772.5
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-51                DA166898.1         157-207
            52-2381             AF064492.1         1-2330
            2382-2384           DB352456.1         8-10                c
FEATURES             Location/Qualifiers
     source          1..2384
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="4"
                     /map="4p15.32"
     gene            1..2384
                     /gene="LDB2"
                     /gene_synonym="CLIM1; LDB-2; LDB1"
                     /note="LIM domain binding 2"
                     /db_xref="GeneID:9079"
                     /db_xref="HGNC:HGNC:6533"
                     /db_xref="MIM:603450"
     exon            1..292
                     /gene="LDB2"
                     /gene_synonym="CLIM1; LDB-2; LDB1"
                     /inference="alignment:Splign:2.1.0"
     CDS             161..1282
                     /gene="LDB2"
                     /gene_synonym="CLIM1; LDB-2; LDB1"
                     /note="isoform a is encoded by transcript variant 1; LIM
                     domain-binding factor-2; LIM binding domain 2; LIM
                     domain-binding protein 2; LIM domain-binding factor CLIM1;
                     carboxyl-terminal LIM domain-binding protein 1"
                     /codon_start=1
                     /product="LIM domain-binding protein 2 isoform a"
                     /protein_id="NP_001281.1"
                     /db_xref="CCDS:CCDS3420.1"
                     /db_xref="GeneID:9079"
                     /db_xref="HGNC:HGNC:6533"
                     /db_xref="MIM:603450"
                     /translation="MSSTPHDPFYSSPFGPFYRRHTPYMVQPEYRIYEMNKRLQSRTE
                     DSDNLWWDAFATEFFEDDATLTLSFCLEDGPKRYTIGRTLIPRYFSTVFEGGVTDLYY
                     ILKHSKESYHNSSITVDCDQCTMVTQHGKPMFTKVCTEGRLILEFTFDDLMRIKTWHF
                     TIRQYRELVPRSILAMHAQDPQVLDQLSKNITRMGLTNFTLNYLRLCVILEPMQELMS
                     RHKTYNLSPRDCLKTCLFQKWQRMVAPPAEPTRQPTTKRRKRKNSTSSTSNSSAGNNA
                     NSTGSKKKTTAANLSLSSQVPDVMVVGEPTLMGGEFGDEDERLITRLENTQYDAANGM
                     DDEEDFNNSPALGNNSPWNSKPPATQETKSENPPPQASQ"
     exon            293..395
                     /gene="LDB2"
                     /gene_synonym="CLIM1; LDB-2; LDB1"
                     /inference="alignment:Splign:2.1.0"
     exon            396..568
                     /gene="LDB2"
                     /gene_synonym="CLIM1; LDB-2; LDB1"
                     /inference="alignment:Splign:2.1.0"
     exon            569..691
                     /gene="LDB2"
                     /gene_synonym="CLIM1; LDB-2; LDB1"
                     /inference="alignment:Splign:2.1.0"
     exon            692..775
                     /gene="LDB2"
                     /gene_synonym="CLIM1; LDB-2; LDB1"
                     /inference="alignment:Splign:2.1.0"
     exon            776..899
                     /gene="LDB2"
                     /gene_synonym="CLIM1; LDB-2; LDB1"
                     /inference="alignment:Splign:2.1.0"
     exon            900..1051
                     /gene="LDB2"
                     /gene_synonym="CLIM1; LDB-2; LDB1"
                     /inference="alignment:Splign:2.1.0"
     exon            1052..2384
                     /gene="LDB2"
                     /gene_synonym="CLIM1; LDB-2; LDB1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2362..2367
                     /regulatory_class="polyA_signal_sequence"
                     /gene="LDB2"
                     /gene_synonym="CLIM1; LDB-2; LDB1"
                     /note="hexamer: AATAAA"
     polyA_site      2384
                     /gene="LDB2"
                     /gene_synonym="CLIM1; LDB-2; LDB1"
                     /note="major polyA site"
ORIGIN      
        1 agttcccagc cagcgtgttc agcctgcctg cctgcctgcc tctgtgtgtg tgtgagcgtg
       61 tgtgcgtgcg tctactttgt actgggaaga acacagccca tgtgctctgc atggacgtta
      121 ctgatactct gtttagcttg attttcgaaa agcaggcaag atgtccagca caccacatga
      181 ccccttctat tcttctcctt tcggcccatt ttataggagg catacaccat acatggtaca
      241 gccagagtac cgaatctatg agatgaacaa gagactgcag tctcgcacag aggatagtga
      301 caacctctgg tgggacgcct ttgccactga attttttgaa gatgacgcca cattaaccct
      361 ttcattttgt ttggaagatg gaccaaagcg atacactatc ggcaggaccc tcatcccccg
      421 ttactttagc actgtgtttg aaggaggggt gaccgacctg tattacattc tcaaacactc
      481 gaaagagtca taccacaact catccatcac ggtggactgc gaccagtgta ccatggtcac
      541 ccagcacggg aagcccatgt ttaccaaggt atgtacagaa ggcagactga tcttggagtt
      601 cacctttgat gatctcatga gaatcaaaac atggcacttt accattagac aataccgaga
      661 gttagtcccg agaagcatcc tagccatgca tgcacaagat cctcaggtcc tggatcagct
      721 gtccaaaaac atcaccagga tggggctaac aaacttcacc ctcaactacc tcaggttgtg
      781 tgtaatattg gagccaatgc aggaactgat gtcgagacat aaaacttaca acctcagtcc
      841 ccgagactgc ctgaagacct gcttgtttca gaagtggcag aggatggtgg ctccgccagc
      901 agaacccaca aggcaaccaa caaccaaacg gagaaaaagg aaaaattcca ccagcagcac
      961 ttccaacagc agcgctggga acaatgcaaa cagcactggc agcaagaaga agaccacagc
     1021 tgcaaacctg agtctgtcca gtcaggtacc tgatgtgatg gtggtaggag agccaactct
     1081 gatgggaggt gagtttgggg acgaggacga aaggctaatc actagattag aaaacacgca
     1141 atatgatgcg gccaacggca tggacgacga ggaggacttc aacaattcac ccgcgctggg
     1201 gaacaacagc ccgtggaaca gtaaacctcc cgccactcaa gagaccaaat cagaaaaccc
     1261 cccaccccag gcttcccaat aagatgatcg gcaccagaat ccactgtcaa taggcccgtg
     1321 ggtgatcatt acaattgcaa atctttactt acaggagagg aaacagaaga gataaaaact
     1381 tttccatgca aatatctatt tctaaaccac aatgatctga ttttctttct tctttctttt
     1441 tttctaattg agaggattat tcccagtaag cttccatgac cctttcttgg aggccttcac
     1501 aggtaataca gatactggca ctgattgtaa ttaaaatgag agaaaactct agcgcatctt
     1561 ctggcacggt tttaacaacg tgtttgtgtt gaatttcctt tttatgcatc aaacgaaggc
     1621 catattgtcc ataaatgctc agtgctcagg atctcattaa tatgccgaac ctaactacag
     1681 atgacttttt aatattgtaa aatattttct gctttttgac ttgcatctga gagtttcttg
     1741 tttcagtaaa aaaagaaaag acaaaaaaat cagctttgga aagtaattta aatgtacctt
     1801 attttttttt tctttatgtt ttctttcatt gggcaacagc taagagggcc cagcaaggta
     1861 atttatggtt gagctgatgt caattggttc ttgtcttgag tcgactcaat ttagcccaag
     1921 tgctgaaaca agaaatgtca tttttttcat caaagacacc agggcagatt tttaagtaaa
     1981 gaaagacaat tggaccctta agaatttatg catttgtaaa gttgctgttg atccaaatat
     2041 tttcaagcca tgtaatccat tggttttgtg ggcagtttaa taaacctgaa cctttgtgtg
     2101 ttttctaatt gtacctgagt tgaccatcct ttctttttat agtatatttc ttgtatgata
     2161 ttttgtaaag ctctcacctg gttcttttat ggggactttt cgtttttggg caactccagt
     2221 gtatttatgt gaaactttat aagagaatta atttttccat ttgcatatta atatgttcct
     2281 ccacacatgt aaaggcacag tggctccgtg tgttaaaaaa cagctgtatt ttatgtatgc
     2341 tttactgata agtgtgccaa taataaactg tgttaatgac caaa
//
