LOCUS       NM_020737               3164 bp    mRNA    linear   PRI 08-JUN-2024
DEFINITION  Homo sapiens leucine rich repeat and fibronectin type III domain
            containing 2 (LRFN2), mRNA.
ACCESSION   NM_020737 XM_166372
VERSION     NM_020737.3
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 3164)
  AUTHORS   Yu,A., Hu,J., Fu,L., Huang,G., Deng,D., Zhang,M., Wang,Y., Shu,G.,
            Jing,L., Li,H., Chen,X., Yang,T., Wei,J., Chen,Z., Zu,X. and Luo,J.
  TITLE     Bladder cancer intrinsic LRFN2 drives anticancer immunotherapy
            resistance by attenuating CD8+ T cell infiltration and functional
            transition
  JOURNAL   J Immunother Cancer 11 (10) (2023)
   PUBMED   37802603
  REMARK    GeneRIF: Bladder cancer intrinsic LRFN2 drives anticancer
            immunotherapy resistance by attenuating CD8[+] T cell infiltration
            and functional transition.
REFERENCE   2  (bases 1 to 3164)
  AUTHORS   Zhou,Y., Xu,L., Wang,J., Ge,B., Wang,Q., Wang,T., Liu,C., Wei,B.,
            Wang,Q. and Gao,Y.
  TITLE     LRFN2 binding to NMDAR inhibits the progress of ESCC via regulating
            the Wnt/beta-Catenin and NF-kappaB signaling pathway
  JOURNAL   Cancer Sci 113 (10), 3566-3578 (2022)
   PUBMED   35879265
  REMARK    GeneRIF: LRFN2 binding to NMDAR inhibits the progress of ESCC via
            regulating the Wnt/beta-Catenin and NF-kappaB signaling pathway.
REFERENCE   3  (bases 1 to 3164)
  AUTHORS   Shah,R., Sharma,V., Singh,H., Sharma,I., Bhat,G.A., Shah,I.A.,
            Iqbal,B., Rafiq,R., Nissa,N., Muzaffar,M., Rasool,M.T., Lone,G.N.,
            Kaul,S., Lone,M.M., Rai,E., Dar,N.A. and Sharma,S.
  TITLE     LRFN2 gene variant rs2494938 provides susceptibility to esophageal
            cancer in the population of Jammu and Kashmir
  JOURNAL   J Cancer Res Ther 16 (Supplement), S156-S159 (2020)
   PUBMED   32880595
  REMARK    GeneRIF: LRFN2 gene variant rs2494938 provides susceptibility to
            esophageal cancer in the population of Jammu and Kashmir.
REFERENCE   4  (bases 1 to 3164)
  AUTHORS   Verma,S., Bakshi,D., Sharma,V., Sharma,I., Shah,R., Bhat,A.,
            Bhat,G.R., Sharma,B., Wakhloo,A., Kaul,S., Heer,V., Bhat,A.,
            Abrol,D., Verma,V. and Kumar,R.
  TITLE     Genetic variants of DNAH11 and LRFN2 genes and their association
            with ovarian and breast cancer
  JOURNAL   Int J Gynaecol Obstet 148 (1), 118-122 (2020)
   PUBMED   31605628
  REMARK    GeneRIF: No significant association of variant rs2494938 of LRFN2
            was observed with ovarian canceror breast cancer in a cohort of
            women in India.
REFERENCE   5  (bases 1 to 3164)
  AUTHORS   Wang,J., Wang,Q., Wei,B., Zhou,Y., Qian,Z., Gao,Y. and Chen,X.
  TITLE     Intronic polymorphisms in genes LRFN2 (rs2494938) and DNAH11
            (rs2285947) are prognostic indicators of esophageal squamous cell
            carcinoma
  JOURNAL   BMC Med Genet 20 (1), 72 (2019)
   PUBMED   31053115
  REMARK    GeneRIF: study demonstrated that the polymorphisms rs2494938 at
            6p21.1 and rs2285947 at 7p15.3 may serve as independent prognostic
            biomarkers for ESCC, implying the potential biological role of
            their related genes (LRFN2 and DNAH11) in the process of ESCC
            development
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 3164)
  AUTHORS   Seabold,G.K., Wang,P.Y., Petralia,R.S., Chang,K., Zhou,A.,
            McDermott,M.I., Wang,Y.X., Milgram,S.L. and Wenthold,R.J.
  TITLE     Dileucine and PDZ-binding motifs mediate synaptic adhesion-like
            molecule 1 (SALM1) trafficking in hippocampal neurons
  JOURNAL   J Biol Chem 287 (7), 4470-4484 (2012)
   PUBMED   22174418
  REMARK    GeneRIF: enrichment of SALM1 on the cell surface affects dendritic
            arborization, and intracellular motifs regulate its dendritic
            versus axonal localization.
REFERENCE   7  (bases 1 to 3164)
  AUTHORS   Nam,J., Mah,W. and Kim,E.
  TITLE     The SALM/Lrfn family of leucine-rich repeat-containing cell
            adhesion molecules
  JOURNAL   Semin Cell Dev Biol 22 (5), 492-498 (2011)
   PUBMED   21736948
  REMARK    Review article
REFERENCE   8  (bases 1 to 3164)
  AUTHORS   Morimura,N., Inoue,T., Katayama,K. and Aruga,J.
  TITLE     Comparative analysis of structure, expression and PSD95-binding
            capacity of Lrfn, a novel family of neuronal transmembrane proteins
  JOURNAL   Gene 380 (2), 72-83 (2006)
   PUBMED   16828986
REFERENCE   9  (bases 1 to 3164)
  AUTHORS   Wang,C.Y., Chang,K., Petralia,R.S., Wang,Y.X., Seabold,G.K. and
            Wenthold,R.J.
  TITLE     A novel family of adhesion-like molecules that interacts with the
            NMDA receptor
  JOURNAL   J Neurosci 26 (8), 2174-2183 (2006)
   PUBMED   16495444
REFERENCE   10 (bases 1 to 3164)
  AUTHORS   Mungall,A.J., Palmer,S.A., Sims,S.K., Edwards,C.A., Ashurst,J.L.,
            Wilming,L., Jones,M.C., Horton,R., Hunt,S.E., Scott,C.E.,
            Gilbert,J.G., Clamp,M.E., Bethel,G., Milne,S., Ainscough,R.,
            Almeida,J.P., Ambrose,K.D., Andrews,T.D., Ashwell,R.I.,
            Babbage,A.K., Bagguley,C.L., Bailey,J., Banerjee,R., Barker,D.J.,
            Barlow,K.F., Bates,K., Beare,D.M., Beasley,H., Beasley,O.,
            Bird,C.P., Blakey,S., Bray-Allen,S., Brook,J., Brown,A.J.,
            Brown,J.Y., Burford,D.C., Burrill,W., Burton,J., Carder,C.,
            Carter,N.P., Chapman,J.C., Clark,S.Y., Clark,G., Clee,C.M.,
            Clegg,S., Cobley,V., Collier,R.E., Collins,J.E., Colman,L.K.,
            Corby,N.R., Coville,G.J., Culley,K.M., Dhami,P., Davies,J.,
            Dunn,M., Earthrowl,M.E., Ellington,A.E., Evans,K.A., Faulkner,L.,
            Francis,M.D., Frankish,A., Frankland,J., French,L., Garner,P.,
            Garnett,J., Ghori,M.J., Gilby,L.M., Gillson,C.J., Glithero,R.J.,
            Grafham,D.V., Grant,M., Gribble,S., Griffiths,C., Griffiths,M.,
            Hall,R., Halls,K.S., Hammond,S., Harley,J.L., Hart,E.A.,
            Heath,P.D., Heathcott,R., Holmes,S.J., Howden,P.J., Howe,K.L.,
            Howell,G.R., Huckle,E., Humphray,S.J., Humphries,M.D., Hunt,A.R.,
            Johnson,C.M., Joy,A.A., Kay,M., Keenan,S.J., Kimberley,A.M.,
            King,A., Laird,G.K., Langford,C., Lawlor,S., Leongamornlert,D.A.,
            Leversha,M., Lloyd,C.R., Lloyd,D.M., Loveland,J.E., Lovell,J.,
            Martin,S., Mashreghi-Mohammadi,M., Maslen,G.L., Matthews,L.,
            McCann,O.T., McLaren,S.J., McLay,K., McMurray,A., Moore,M.J.,
            Mullikin,J.C., Niblett,D., Nickerson,T., Novik,K.L., Oliver,K.,
            Overton-Larty,E.K., Parker,A., Patel,R., Pearce,A.V., Peck,A.I.,
            Phillimore,B., Phillips,S., Plumb,R.W., Porter,K.M., Ramsey,Y.,
            Ranby,S.A., Rice,C.M., Ross,M.T., Searle,S.M., Sehra,H.K.,
            Sheridan,E., Skuce,C.D., Smith,S., Smith,M., Spraggon,L.,
            Squares,S.L., Steward,C.A., Sycamore,N., Tamlyn-Hall,G., Tester,J.,
            Theaker,A.J., Thomas,D.W., Thorpe,A., Tracey,A., Tromans,A.,
            Tubby,B., Wall,M., Wallis,J.M., West,A.P., White,S.S.,
            Whitehead,S.L., Whittaker,H., Wild,A., Willey,D.J., Wilmer,T.E.,
            Wood,J.M., Wray,P.W., Wyatt,J.C., Young,L., Younger,R.M.,
            Bentley,D.R., Coulson,A., Durbin,R., Hubbard,T., Sulston,J.E.,
            Dunham,I., Rogers,J. and Beck,S.
  TITLE     The DNA sequence and analysis of human chromosome 6
  JOURNAL   Nature 425 (6960), 805-811 (2003)
   PUBMED   14574404
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AK291474.1, AB033072.1 and AL591063.6.
            
            On May 17, 2019 this sequence version replaced NM_020737.2.
            
            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 :: BC142616.1, AK291474.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA2142348, SAMEA2145743
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000338305.7/ ENSP00000345985.6
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-2028              AK291474.1         77-2104
            2029-3121           AB033072.1         2052-3144
            3122-3164           AL591063.6         21837-21879         c
FEATURES             Location/Qualifiers
     source          1..3164
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="6"
                     /map="6p21.2-p21.1"
     gene            1..3164
                     /gene="LRFN2"
                     /gene_synonym="FIGLER2; KIAA1246; SALM1"
                     /note="leucine rich repeat and fibronectin type III domain
                     containing 2"
                     /db_xref="GeneID:57497"
                     /db_xref="HGNC:HGNC:21226"
                     /db_xref="MIM:612808"
     exon            1..424
                     /gene="LRFN2"
                     /gene_synonym="FIGLER2; KIAA1246; SALM1"
                     /inference="alignment:Splign:2.1.0"
     exon            425..1842
                     /gene="LRFN2"
                     /gene_synonym="FIGLER2; KIAA1246; SALM1"
                     /inference="alignment:Splign:2.1.0"
     CDS             443..2812
                     /gene="LRFN2"
                     /gene_synonym="FIGLER2; KIAA1246; SALM1"
                     /note="fibronectin type III, immunoglobulin and leucine
                     rich repeat domains 2; leucine-rich repeat and fibronectin
                     type-III domain-containing protein 2; synaptic
                     adhesion-like molecule 1"
                     /codon_start=1
                     /product="leucine-rich repeat and fibronectin type-III
                     domain-containing protein 2 precursor"
                     /protein_id="NP_065788.1"
                     /db_xref="CCDS:CCDS34443.1"
                     /db_xref="GeneID:57497"
                     /db_xref="HGNC:HGNC:21226"
                     /db_xref="MIM:612808"
                     /translation="METLLGGLLAFGMAFAVVDACPKYCVCQNLSESLGTLCPSKGLL
                     FVPPDIDRRTVELRLGGNFIIHISRQDFANMTGLVDLTLSRNTISHIQPFSFLDLESL
                     RSLHLDSNRLPSLGEDTLRGLVNLQHLIVNNNQLGGIADEAFEDFLLTLEDLDLSYNN
                     LHGLPWDSVRRMVNLHQLSLDHNLLDHIAEGTFADLQKLARLDLTSNRLQKLPPDPIF
                     ARSQASALTATPFAPPLSFSFGGNPLHCNCELLWLRRLERDDDLETCGSPGGLKGRYF
                     WHVREEEFVCEPPLITQHTHKLLVLEGQAATLKCKAIGDPSPLIHWVAPDDRLVGNSS
                     RTAVYDNGTLDIFITTSQDSGAFTCIAANAAGEATAMVEVSIVQLPHLSNSTSRTAPP
                     KSRLSDITGSSKTSRGGGGSGGGEPPKSPPERAVLVSEVTTTSALVKWSVSKSAPRVK
                     MYQLQYNCSDDEVLIYRMIPASNKAFVVNNLVSGTGYDLCVLAMWDDTATTLTATNIV
                     GCAQFFTKADYPQCQSMHSQILGGTMILVIGGIIVATLLVFIVILMVRYKVCNHEAPS
                     KMAAAVSNVYSQTNGAQPPPPSSAPAGAPPQGPPKVVVRNELLDFTASLARASDSSSS
                     SSLGSGEAAGLGRAPWRIPPSAPRPKPSLDRLMGAFASLDLKSQRKEELLDSRTPAGR
                     GAGTSARGHHSDREPLLGPPAARARSLLPLPLEGKAKRSHSFDMGDFAAAAAGGVVPG
                     GYSPPRKVSNIWTKRSLSVNGMLLPFEESDLVGARGTFGSSEWVMESTV"
     exon            1843..3164
                     /gene="LRFN2"
                     /gene_synonym="FIGLER2; KIAA1246; SALM1"
                     /inference="alignment:Splign:2.1.0"
     polyA_site      3117
                     /gene="LRFN2"
                     /gene_synonym="FIGLER2; KIAA1246; SALM1"
                     /note="major polyA site"
     polyA_site      3164
                     /gene="LRFN2"
                     /gene_synonym="FIGLER2; KIAA1246; SALM1"
                     /note="major polyA site"
ORIGIN      
        1 acacatacac tcacacatac acaacccggc aggctcgtct gaacttgaag acaccccaca
       61 ttccaagatg cccgaggttc ctgggaatgc ctggggttct tcgatccgga aaatcctacc
      121 ggcatcctcc tagggaggga ttattattat tatttttctt taatctggaa gagaagagaa
      181 caagttgtgc ttttcccccc ttcttcttgc taaatgccat ggatataact gaataagcgg
      241 ctcagggctt tccccgcgtg gacgtccgag gccaccatct gcctgcattc gccggagccg
      301 ccggagggtt tagctcgagt ctgtctcggg cggggaagga tgcgtggccg agccggggag
      361 cccgggcgcc ccgcggagcc ggcctcggtg ccacccagcc gggggtagat gctgcctcgc
      421 ccaggcgctg agtgaccaga ccatggagac cctgcttggt ggcctgctag cgtttggcat
      481 ggcgtttgcc gtggtcgacg cctgccccaa gtactgtgtc tgccagaatc tgtctgagtc
      541 actggggacc ctgtgcccct ccaaggggct gctctttgta ccccctgata ttgaccggcg
      601 gacagtggag ctgcgcctgg gcggcaactt catcatccac atcagccgcc aggactttgc
      661 caacatgacg gggctggtgg acctgaccct gtccaggaac accatcagcc acatccagcc
      721 cttttccttt ctggacctcg agagcctccg ctccctgcat cttgacagca atcggctgcc
      781 aagccttggg gaggacaccc tccggggcct ggtcaacctg cagcacctta tcgtgaacaa
      841 caaccagctg ggcggcatcg cagatgaggc ttttgaggac ttcctgctga cattggagga
      901 tctggacctc tcctacaaca acctccatgg cctgccgtgg gactccgtgc gacgcatggt
      961 caacctccac cagctgagcc tggaccacaa cctgctggat cacatcgccg agggcacctt
     1021 tgcagacctg cagaaactgg cccgcctgga tctcacctcc aatcggctgc agaagctgcc
     1081 ccctgatccc atctttgccc gctcccaggc ttcggctttg acagccacac cctttgcccc
     1141 acccttgtcc tttagttttg ggggtaaccc acttcactgc aattgtgagc ttctctggct
     1201 gcggaggctc gagcgggacg atgacctgga aacctgtggc tccccagggg gcctcaaggg
     1261 tcgctacttc tggcatgtgc gtgaggagga gtttgtgtgc gagccgcctc tcatcaccca
     1321 gcacacacac aagttgctgg ttctggaggg ccaggcggcc acactcaagt gcaaagccat
     1381 tggggacccc agccccctta tccactgggt agcccccgat gaccgcctgg tagggaactc
     1441 ctcaaggacc gctgtctatg acaatggcac cctggacatc ttcatcacca catctcagga
     1501 cagtggtgcc ttcacctgca ttgctgccaa tgctgccgga gaggccacgg ccatggtgga
     1561 ggtctccatc gtccagctgc cacacctcag caacagcacc agccgcactg caccccccaa
     1621 gtcccgcctc tcagacatca ctggctccag caagaccagc cggggaggtg gaggcagtgg
     1681 gggcggagag cctcccaaaa gccccccgga acgggctgtg cttgtgtctg aagtgaccac
     1741 cacctcggcc ctggtcaagt ggtctgtcag caagtcagca ccccgggtga agatgtacca
     1801 gctgcagtac aactgctctg acgatgaggt actgatttac aggatgatcc cagcctccaa
     1861 caaggccttc gtggtcaaca acctggtgtc agggactggc tacgacttgt gtgtgctggc
     1921 catgtgggat gacacagcca cgacactcac ggccaccaac atcgtgggct gcgcccagtt
     1981 cttcaccaag gctgactacc cgcagtgcca gtccatgcac agccagattc tgggcggcac
     2041 catgatcctg gtcatcgggg gcatcatcgt ggccacgctg ctggtcttca tcgtcatcct
     2101 catggtgcgc tacaaggtct gcaaccacga ggcccccagc aagatggcag cggccgtgag
     2161 caatgtgtac tcgcagacca acggcgccca gccaccgcct ccaagcagcg caccagccgg
     2221 ggccccgccg cagggcccgc cgaaggtggt ggtgcgcaac gagctcctgg acttcaccgc
     2281 cagcctggcc cgcgccagtg actcctcttc ctccagctcc ctgggcagtg gggaggctgc
     2341 ggggctggga cgggccccct ggaggatccc accctccgcc ccgcgcccca agcccagcct
     2401 tgaccgcctg atgggggcct tcgcctccct ggacctcaag agtcagagaa aggaggagct
     2461 gctggactcc aggactccag ccgggagagg ggctgggacg tcggcccggg gccaccactc
     2521 ggaccgagag ccactgctgg ggccccctgc ggcccgggcc aggagcctgc tccccttgcc
     2581 gttggagggc aaggccaaac gcagccactc cttcgacatg ggggactttg ctgctgcggc
     2641 ggcgggaggg gtcgtgccgg gcggctacag tcctcctcgg aaggtctcga acatctggac
     2701 gaagcgcagc ctctctgtca acggcatgct cttgcccttt gaggagagtg acctggtggg
     2761 ggcccggggg acttttggca gctccgaatg ggtgatggag agcacggtct aggtgggggt
     2821 gggcatgctc cctttcctgt gcgcagggtg ggagaagggg aaagaatctc actggcaagt
     2881 gtttgtggag tttccatggt gatgtttaca tccagggaca gtttcgtctc cctgtcaatg
     2941 gcctcgtgtc cccccctacc ccgcaacacc cacatcacct ccccaccacc cggccggggt
     3001 gtgctcaggg aatgtggact cgctcaaatg ccggactgag ccctgagtgt ttggaaaggc
     3061 gagactccgc ctttctaatc acaaatgtag cctacaagca agcggctttg gattgcttat
     3121 gggtctagtg ttgtttttat ttcttaattt attttttttc catt
//
