LOCUS       NM_052953               1730 bp    mRNA    linear   PRI 26-FEB-2023
DEFINITION  Homo sapiens leucine rich repeat containing 3B (LRRC3B), transcript
            variant 1, mRNA.
ACCESSION   NM_052953
VERSION     NM_052953.4
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 1730)
  AUTHORS   Luo L, Fu S, Du W, He LN, Zhang X, Wang Y, Zhou Y and Hong S.
  TITLE     LRRC3B and its promoter hypomethylation status predicts response to
            anti-PD-1 based immunotherapy
  JOURNAL   Front Immunol 14, 959868 (2023)
   PUBMED   36798137
  REMARK    GeneRIF: LRRC3B and its promoter hypomethylation status predicts
            response to anti-PD-1 based immunotherapy.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 1730)
  AUTHORS   Luck K, Kim DK, Lambourne L, Spirohn K, Begg BE, Bian W, Brignall
            R, Cafarelli T, Campos-Laborie FJ, Charloteaux B, Choi D, Cote AG,
            Daley M, Deimling S, Desbuleux A, Dricot A, Gebbia M, Hardy MF,
            Kishore N, Knapp JJ, Kovacs IA, Lemmens I, Mee MW, Mellor JC,
            Pollis C, Pons C, Richardson AD, Schlabach S, Teeking B, Yadav A,
            Babor M, Balcha D, Basha O, Bowman-Colin C, Chin SF, Choi SG,
            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 JN, Rangarajan S,
            Rasla J, Rayhan A, Rolland T, San-Miguel A, Shen Y, Sheykhkarimli
            D, Sheynkman GM, Simonovsky E, Tasan M, Tejeda A, Tropepe V,
            Twizere JC, Wang Y, Weatheritt RJ, Weile J, Xia Y, Yang X,
            Yeger-Lotem E, Zhong Q, Aloy P, Bader GD, De Las Rivas J, Gaudet S,
            Hao T, Rak J, Tavernier J, Hill DE, Vidal M, Roth FP and Calderwood
            MA.
  TITLE     A reference map of the human binary protein interactome
  JOURNAL   Nature 580 (7803), 402-408 (2020)
   PUBMED   32296183
REFERENCE   3  (bases 1 to 1730)
  AUTHORS   Kan L, Zhang M and He P.
  TITLE     [LRRC3B is Downregulated in Non-small Cell Lung Cancer and
            Connected with Cell Proliferation and Invasion]
  JOURNAL   Zhongguo Fei Ai Za Zhi 19 (4), 177-183 (2016)
   PUBMED   27118644
  REMARK    GeneRIF: The expression of LRRC3B is downregulated in non-small
            cell lung cancer compared with normal epithelial cells.
REFERENCE   4  (bases 1 to 1730)
  AUTHORS   Kan L, Li H, Zhang Y, Wang J, Niu H, Jiang H, Zhang M, Bai X and He
            P.
  TITLE     LRRC3B is downregulated in non-small-cell lung cancer and inhibits
            cancer cell proliferation and invasion
  JOURNAL   Tumour Biol 37 (1), 1113-1120 (2016)
   PUBMED   26276358
  REMARK    GeneRIF: LRRC3B may serve as an important tumor suppressor in
            non-small-cell lung cancer
REFERENCE   5  (bases 1 to 1730)
  AUTHORS   Wang Y, Peng Y, Zhou Y, Zhou Y and Zhong H.
  TITLE     The clinical value of LRRC3B gene expression and promoter
            hypermethylation in breast carcinomas
  JOURNAL   Cell Biochem Biophys 70 (2), 1035-1041 (2014)
   PUBMED   24839112
  REMARK    GeneRIF: LRRC3B gene expression and promoter hypermethylation in
            breast carcinomas
REFERENCE   6  (bases 1 to 1730)
  AUTHORS   Haraldson K, Kashuba VI, Dmitriev AA, Senchenko VN, Kudryavtseva
            AV, Pavlova TV, Braga EA, Pronina IV, Kondratov AG, Rynditch AV,
            Lerman MI and Zabarovsky ER.
  TITLE     LRRC3B gene is frequently epigenetically inactivated in several
            epithelial malignancies and inhibits cell growth and replication
  JOURNAL   Biochimie 94 (5), 1151-1157 (2012)
   PUBMED   22321817
  REMARK    GeneRIF: Data suggest that LRRC3B gene could be involved in the
            process of carcinogenesis as a tumor suppressor gene.
REFERENCE   7  (bases 1 to 1730)
  AUTHORS   Kondratov AG, Stoliar LA, Kvasha SM, Gordiyuk VV, Zgonnyk YM,
            Gerashchenko AV, Vozianov AF, Rynditch AV, Zabarovsky ER and
            Kashuba VI.
  TITLE     Methylation pattern of the putative tumor-suppressor gene LRRC3B
            promoter in clear cell renal cell carcinomas
  JOURNAL   Mol Med Rep 5 (2), 509-512 (2012)
   PUBMED   22101383
  REMARK    GeneRIF: The LRRC3B gene promoter was methylated in 43% of clear
            cell renal carcinoma samples.
REFERENCE   8  (bases 1 to 1730)
  AUTHORS   Tian XQ, Zhang Y, Sun D, Zhao S, Xiong H and Fang J.
  TITLE     Epigenetic silencing of LRRC3B in colorectal cancer
  JOURNAL   Scand J Gastroenterol 44 (1), 79-84 (2009)
   PUBMED   18815942
  REMARK    GeneRIF: LRRC3B may be a novel methylation-sensitive tumor
            suppressor gene in CRC. LRRC3B methylation has significant tumor
            specificity and may be a biomarker of CRC.
REFERENCE   9  (bases 1 to 1730)
  AUTHORS   Kim M, Kim JH, Jang HR, Kim HM, Lee CW, Noh SM, Song KS, Cho JS,
            Jeong HY, Hahn Y, Yeom YI, Yoo HS and Kim YS.
  TITLE     LRRC3B, encoding a leucine-rich repeat-containing protein, is a
            putative tumor suppressor gene in gastric cancer
  JOURNAL   Cancer Res 68 (17), 7147-7155 (2008)
   PUBMED   18757430
  REMARK    GeneRIF: suggest that LRRC3B is a putative tumor suppressor gene
            that is silenced in gastric cancers by epigenetic mechanisms and
            that LRRC3B silencing in cancer may play an important role in tumor
            escape from immune surveillance
REFERENCE   10 (bases 1 to 1730)
  AUTHORS   Xu ZM, Gao WR, Mei Q, Chen J and Lu J.
  TITLE     The novel gene LRP15 is regulated by DNA methylation and confers
            increased efficiency of DNA repair of ultraviolet-induced DNA
            damage
  JOURNAL   BMB Rep 41 (3), 230-235 (2008)
   PUBMED   18377727
  REMARK    GeneRIF: The expression of LRP15 is controlled by methylation in
            its promoter in HeLa cells, and LRP15 confers resistance to
            ultraviolet rays damage and accelerates the DNA repair rate.
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AC099754.2, BC067784.1 and
            BC040656.1.
            
            On Aug 13, 2020 this sequence version replaced NM_052953.3.
            
            Summary: The protein encoded by this gene is a tumor suppressor,
            with lowered expression levels found in gastric, renal, colorectal,
            lung, and breast cancer tissues. The promoter of this gene is
            frequently hypermethylated in these cancer tissues, although the
            hypermethylation does not appear to be the cause of the reduced
            expression of this gene. Several transcript variants encoding the
            same protein have been found for this gene. [provided by RefSeq,
            Dec 2015].
            
            ##Evidence-Data-START##
            Transcript exon combination :: AF396933.2, BC067784.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA2142348, SAMEA2145245
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000396641.7/ ENSP00000379880.2
            RefSeq Select criteria :: based on manual assertion, conservation,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-34                AC099754.2         78703-78736         c
            35-416              BC067784.1         1-382
            417-417             AC099754.2         78320-78320         c
            418-1725            BC067784.1         384-1691
            1726-1730           BC040656.1         1693-1697
FEATURES             Location/Qualifiers
     source          1..1730
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="3"
                     /map="3p24.1"
     gene            1..1730
                     /gene="LRRC3B"
                     /gene_synonym="LRP15"
                     /note="leucine rich repeat containing 3B"
                     /db_xref="GeneID:116135"
                     /db_xref="HGNC:HGNC:28105"
                     /db_xref="MIM:618996"
     exon            1..466
                     /gene="LRRC3B"
                     /gene_synonym="LRP15"
                     /inference="alignment:Splign:2.1.0"
     exon            467..1730
                     /gene="LRRC3B"
                     /gene_synonym="LRP15"
                     /inference="alignment:Splign:2.1.0"
     CDS             627..1406
                     /gene="LRRC3B"
                     /gene_synonym="LRP15"
                     /note="leucine-rich repeat-containing protein 3B;
                     leucine-rich repeat protein LRP15; leucine-rich repeat
                     protein 15"
                     /codon_start=1
                     /product="leucine-rich repeat-containing protein 3B
                     precursor"
                     /protein_id="NP_443185.1"
                     /db_xref="CCDS:CCDS2644.1"
                     /db_xref="GeneID:116135"
                     /db_xref="HGNC:HGNC:28105"
                     /db_xref="MIM:618996"
                     /translation="MNLVDLWLTRSLSMCLLLQSFVLMILCFHSASMCPKGCLCSSSG
                     GLNVTCSNANLKEIPRDLPPETVLLYLDSNQITSIPNEIFKDLHQLRVLNLSKNGIEF
                     IDEHAFKGVAETLQTLDLSDNRIQSVHKNAFNNLKARARIANNPWHCDCTLQQVLRSM
                     ASNHETAHNVICKTSVLDEHAGRPFLNAANDADLCNLPKKTTDYAMLVTMFGWFTMVI
                     SYVVYYVRQNQEDARRHLEYLKSLPSRQKKADEPDDISTVV"
     regulatory      1701..1706
                     /regulatory_class="polyA_signal_sequence"
                     /gene="LRRC3B"
                     /gene_synonym="LRP15"
                     /note="hexamer: AATAAA"
     polyA_site      1730
                     /gene="LRRC3B"
                     /gene_synonym="LRP15"
                     /note="major polyA site"
ORIGIN      
        1 attcccagcc tgggtttgga ggcgatttcc ctctattgac tgagccgact gcatctctgg
       61 gcaagcggcg ctttgcctct ctcctgtctt tgtctgctct tcctgcaagg ctacggcgcc
      121 tggagcaggg tctgcagcgg ccgccgcagc aacgcgagcc aagtcgtgcc ccgcacggcc
      181 gcccggggcc gcaccctcgc tcggtggcgg cgcccgaaga cgccagccgc gccacgcact
      241 gcctgcgtcc cgcgccccag ccgccgcgca ccaacgccgc cgccttcgcc gggagccaag
      301 cccgccgggc cggcccggtc ccaggtgggc agctcggctt gcagctggtt ggaggtggcg
      361 gccgctgcag ccctggcagc gggcacaccc ctaagcatac gcacccaacg cctcctccct
      421 gagccacgag gatggagcag ccaccccggc ccgggactgg cgcaaggtgc ccaagcaagg
      481 aaagaaataa tgaagagaca catgtgttag ctgcagcctt ttgaaacacg caagaaggaa
      541 atcaatagtg tggacagggc tggaaccttt accacgcttg ttggagtaga tgaggaatgg
      601 gctcgtgatt atgctgacat tccagcatga atctggtaga cctgtggtta acccgttccc
      661 tctccatgtg tctcctccta caaagttttg ttcttatgat actgtgcttt cattctgcca
      721 gtatgtgtcc caagggctgt ctttgttctt cctctggggg tttaaatgtc acctgtagca
      781 atgcaaatct caaggaaata cctagagatc ttcctcctga aacagtctta ctgtatctgg
      841 actccaatca gatcacatct attcccaatg aaatttttaa ggacctccat caactgagag
      901 ttctcaacct gtccaaaaat ggcattgagt ttatcgatga gcatgccttc aaaggagtag
      961 ctgaaacctt gcagactctg gacttgtccg acaatcggat tcaaagtgtg cacaaaaatg
     1021 ccttcaataa cctgaaggcc agggccagaa ttgccaacaa cccctggcac tgcgactgta
     1081 ctctacagca agttctgagg agcatggcgt ccaatcatga gacagcccac aacgtgatct
     1141 gtaaaacgtc cgtgttggat gaacatgctg gcagaccatt cctcaatgct gccaacgacg
     1201 ctgacctttg taacctccct aaaaaaacta ccgattatgc catgctggtc accatgtttg
     1261 gctggttcac tatggtgatc tcatatgtgg tatattatgt gaggcaaaat caggaggatg
     1321 cccggagaca cctcgaatac ttgaaatccc tgccaagcag gcagaagaaa gcagatgaac
     1381 ctgatgatat tagcactgtg gtatagtgtc caaactgact gtcattgaga aagaaagaaa
     1441 gtagtttgcg attgcagtag aaataagtgg tttacttctc ccatccattg taaacatttg
     1501 aaactttgta tttcagtttc ttttgaatta tgccactgct gaacttttaa caaacactac
     1561 aacataaata atttgagttt aggtgatcca ccccttaatt gtacccccga tggtatattt
     1621 ctgagtaagc tactatctga acattagtta gatccatctc actatttaat aatgaaattt
     1681 atttttttaa tttaaaagca aataaaagct taactttgaa ccatggaaaa
//
