LOCUS       NM_015986               2873 bp    mRNA    linear   PRI 08-OCT-2024
DEFINITION  Homo sapiens cytokine receptor like factor 3 (CRLF3), transcript
            variant 1, mRNA.
ACCESSION   NM_015986
VERSION     NM_015986.4
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 2873)
  AUTHORS   Wilson,A.F., Barakat,R., Mu,R., Karush,L.L., Gao,Y., Hartigan,K.A.,
            Chen,J.K., Shu,H., Turner,T.N., Maloney,S.E., Mennerick,S.J.,
            Gutmann,D.H. and Anastasaki,C.
  TITLE     A common single nucleotide variant in the cytokine receptor-like
            factor-3 (CRLF3) gene causes neuronal deficits in human and mouse
            cells
  JOURNAL   Hum Mol Genet 32 (24), 3342-3352 (2023)
   PUBMED   37712888
  REMARK    GeneRIF: A common single nucleotide variant in the cytokine
            receptor-like factor-3 (CRLF3) gene causes neuronal deficits in
            human and mouse cells.
REFERENCE   2  (bases 1 to 2873)
  AUTHORS   Wegscheid,M.L., Anastasaki,C., Hartigan,K.A., Cobb,O.M.,
            Papke,J.B., Traber,J.N., Morris,S.M. and Gutmann,D.H.
  TITLE     Patient-derived iPSC-cerebral organoid modeling of the 17q11.2
            microdeletion syndrome establishes CRLF3 as a critical regulator of
            neurogenesis
  JOURNAL   Cell Rep 36 (1), 109315 (2021)
   PUBMED   34233200
  REMARK    GeneRIF: Patient-derived iPSC-cerebral organoid modeling of the
            17q11.2 microdeletion syndrome establishes CRLF3 as a critical
            regulator of neurogenesis.
REFERENCE   3  (bases 1 to 2873)
  AUTHORS   Haenig,C., Atias,N., Taylor,A.K., Mazza,A., Schaefer,M.H., Russ,J.,
            Riechers,S.P., Jain,S., Coughlin,M., Fontaine,J.F., Freibaum,B.D.,
            Brusendorf,L., Zenkner,M., Porras,P., Stroedicke,M., Schnoegl,S.,
            Arnsburg,K., Boeddrich,A., Pigazzini,L., Heutink,P., Taylor,J.P.,
            Kirstein,J., Andrade-Navarro,M.A., Sharan,R. and Wanker,E.E.
  TITLE     Interactome Mapping Provides a Network of Neurodegenerative Disease
            Proteins and Uncovers Widespread Protein Aggregation in Affected
            Brains
  JOURNAL   Cell Rep 32 (7), 108050 (2020)
   PUBMED   32814053
REFERENCE   4  (bases 1 to 2873)
  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 2873)
  AUTHORS   Chen,S., Fragoza,R., Klei,L., Liu,Y., Wang,J., Roeder,K., Devlin,B.
            and Yu,H.
  TITLE     An interactome perturbation framework prioritizes damaging missense
            mutations for developmental disorders
  JOURNAL   Nat Genet 50 (7), 1032-1040 (2018)
   PUBMED   29892012
REFERENCE   6  (bases 1 to 2873)
  AUTHORS   Yang,F., Xu,Y.P., Li,J., Duan,S.S., Fu,Y.J., Zhang,Y., Zhao,Y.,
            Qiao,W.T., Chen,Q.M., Geng,Y.Q., Che,C.Y., Cao,Y.L., Wang,Y.,
            Zhang,L., Long,L., He,J., Cui,Q.C., Chen,S.C., Wang,S.H. and Liu,L.
  TITLE     Cloning and characterization of a novel intracellular protein p48.2
            that negatively regulates cell cycle progression
  JOURNAL   Int J Biochem Cell Biol 41 (11), 2240-2250 (2009)
   PUBMED   19427400
  REMARK    GeneRIF: p48.2 may represent a novel type of intracellular protein
            functioning as a negative regulator at the G0/G1 phase.
REFERENCE   7  (bases 1 to 2873)
  AUTHORS   Yang,F., Zhang,Y., Cao,Y.L., Wang,S.H. and Liu,L.
  TITLE     Establishment and utilization of a tetracycline-controlled
            inducible RNA interfering system to repress gene expression in
            chronic myelogenous leukemia cells
  JOURNAL   Acta Biochim Biophys Sin (Shanghai) 37 (12), 851-856 (2005)
   PUBMED   16331330
REFERENCE   8  (bases 1 to 2873)
  AUTHORS   Jenne,D.E., Tinschert,S., Dorschner,M.O., Hameister,H., Stephens,K.
            and Kehrer-Sawatzki,H.
  TITLE     Complete physical map and gene content of the human NF1 tumor
            suppressor region in human and mouse
  JOURNAL   Genes Chromosomes Cancer 37 (2), 111-120 (2003)
   PUBMED   12696059
REFERENCE   9  (bases 1 to 2873)
  AUTHORS   Jenne,D.E., Tinschert,S., Reimann,H., Lasinger,W., Thiel,G.,
            Hameister,H. and Kehrer-Sawatzki,H.
  TITLE     Molecular characterization and gene content of breakpoint
            boundaries in patients with neurofibromatosis type 1 with 17q11.2
            microdeletions
  JOURNAL   Am J Hum Genet 69 (3), 516-527 (2001)
   PUBMED   11468690
REFERENCE   10 (bases 1 to 2873)
  AUTHORS   Howard,G.A., Turner,R.T., Bottemiller,B.L. and Rader,J.I.
  TITLE     Serum-free culture of Japanese quail kidney cells. Regulation of
            vitamin D metabolism
  JOURNAL   Biochim Biophys Acta 587 (4), 495-506 (1979)
   PUBMED   228748
  REMARK    GeneRIF: Suggests that the homologous rat protein is involved in
            neuronal morphology regulation.
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from BU902521.1, BC023567.2 and
            AA993312.1.
            This sequence is a reference standard in the RefSeqGene project.
            
            On Nov 22, 2018 this sequence version replaced NM_015986.3.
            
            Summary: This gene encodes a cytokine receptor-like factor that may
            negatively regulate cell cycle progression at the G0/G1 phase.
            Studies of the related rat protein suggest that it may regulate
            neuronal morphology and synaptic vesicle biogenesis. This gene is
            one of several genes located in the neurofibromatosis type I tumor
            suppressor region on the q arm of chromosome 17, a region that is
            subject to microdeletions, duplications, chromosomal breaks and
            rearrangements. Alternative splicing of this gene results in
            multiple transcript variants. Related pseudogenes have been
            identified on chromosomes 2 and 5. [provided by RefSeq, Aug 2012].
            
            Transcript Variant: This variant (1) represents the longer
            transcript and encodes the supported protein.
            
            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 :: AF046059.1, BC023567.2 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000324238.7/ ENSP00000318804.6
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-10                BU902521.1         110-119
            11-2871             BC023567.2         1-2861
            2872-2873           AA993312.1         14-15               c
FEATURES             Location/Qualifiers
     source          1..2873
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="17"
                     /map="17q11.2"
     gene            1..2873
                     /gene="CRLF3"
                     /gene_synonym="CREME-9; CREME9; CRLM9; CYTOR4; FRWS;
                     p48.2"
                     /note="cytokine receptor like factor 3"
                     /db_xref="GeneID:51379"
                     /db_xref="HGNC:HGNC:17177"
                     /db_xref="MIM:614853"
     exon            1..170
                     /gene="CRLF3"
                     /gene_synonym="CREME-9; CREME9; CRLM9; CYTOR4; FRWS;
                     p48.2"
                     /inference="alignment:Splign:2.1.0"
     CDS             42..1370
                     /gene="CRLF3"
                     /gene_synonym="CREME-9; CREME9; CRLM9; CYTOR4; FRWS;
                     p48.2"
                     /note="cytokine receptor-like molecule 9; cytokine
                     receptor-related protein 4; type I cytokine receptor-like
                     factor p48"
                     /codon_start=1
                     /product="cytokine receptor-like factor 3"
                     /protein_id="NP_057070.3"
                     /db_xref="CCDS:CCDS32607.1"
                     /db_xref="GeneID:51379"
                     /db_xref="HGNC:HGNC:17177"
                     /db_xref="MIM:614853"
                     /translation="MRGAMELEPELLLQEARENVEAAQSYRRELGHRLEGLREARRQI
                     KESASQTRDVLKQHFNDLKGTLGKLLDERLVTLLQEVDTIEQETIKPLDDCQKLIEHG
                     VNTAEDLVREGEIAMLGGVGEENEKLWSFTKKASHIQLDSLPEVPLLVDVPCLSAQLD
                     DSILNIVKDHIFKHGTVASRPPVQIEELIEKPGGIIVRWCKVDDDFTAQDYRLQFRKC
                     TSNHFEDVYVGSETEFIVLHIDPNVDYQFRVCARGDGRQEWSPWSVPQIGHSTLVPHE
                     WTAGFEGYSLSSRRNIALRNDSESSGVLYSRAPTYFCGQTLTFRVETVGQPDRRDSIG
                     VCAEKQDGYDSLQRDQAVCISTNGAVFVNGKEMTNQLPAVTSGSTVTFDIEAVTLGTT
                     SNNEGGHFKLRVTISSNNREVVFDWLLDQSCGSLYFGCSFFYPGWKVLVF"
     exon            171..378
                     /gene="CRLF3"
                     /gene_synonym="CREME-9; CREME9; CRLM9; CYTOR4; FRWS;
                     p48.2"
                     /inference="alignment:Splign:2.1.0"
     exon            379..466
                     /gene="CRLF3"
                     /gene_synonym="CREME-9; CREME9; CRLM9; CYTOR4; FRWS;
                     p48.2"
                     /inference="alignment:Splign:2.1.0"
     exon            467..644
                     /gene="CRLF3"
                     /gene_synonym="CREME-9; CREME9; CRLM9; CYTOR4; FRWS;
                     p48.2"
                     /inference="alignment:Splign:2.1.0"
     exon            645..867
                     /gene="CRLF3"
                     /gene_synonym="CREME-9; CREME9; CRLM9; CYTOR4; FRWS;
                     p48.2"
                     /inference="alignment:Splign:2.1.0"
     exon            868..1000
                     /gene="CRLF3"
                     /gene_synonym="CREME-9; CREME9; CRLM9; CYTOR4; FRWS;
                     p48.2"
                     /inference="alignment:Splign:2.1.0"
     exon            1001..1113
                     /gene="CRLF3"
                     /gene_synonym="CREME-9; CREME9; CRLM9; CYTOR4; FRWS;
                     p48.2"
                     /inference="alignment:Splign:2.1.0"
     exon            1114..2873
                     /gene="CRLF3"
                     /gene_synonym="CREME-9; CREME9; CRLM9; CYTOR4; FRWS;
                     p48.2"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2852..2857
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CRLF3"
                     /gene_synonym="CREME-9; CREME9; CRLM9; CYTOR4; FRWS;
                     p48.2"
                     /note="hexamer: AATAAA"
     polyA_site      2860
                     /gene="CRLF3"
                     /gene_synonym="CREME-9; CREME9; CRLM9; CYTOR4; FRWS;
                     p48.2"
     polyA_site      2873
                     /gene="CRLF3"
                     /gene_synonym="CREME-9; CREME9; CRLM9; CYTOR4; FRWS;
                     p48.2"
                     /note="major polyA site"
ORIGIN      
        1 agtcgggaac ccgcgctagg tttcgccggc cgcgcggcca gatgaggggg gcgatggagc
       61 tggagcctga gctgctgttg caggaggccc gcgagaacgt ggaggcagcg cagagctacc
      121 ggcgggagct gggtcaccgg cttgaggggc tgcgtgaggc gcggaggcag atcaaagaaa
      181 gtgcatcaca gacaagggat gttctcaaac agcattttaa tgatttaaag ggaacccttg
      241 gaaagctcct ggatgagcga ttggtgaccc ttttgcaaga ggtggacacc attgaacagg
      301 agaccattaa accactagat gactgccaga agctcataga acacggagtc aacactgcag
      361 aggacttagt ccgagaaggt gaaatcgcca tgcttggtgg tgtgggagaa gagaatgaga
      421 aactgtggag ctttaccaaa aaggcctcgc acattcagtt ggacagctta ccagaagtac
      481 ctttactggt tgatgtgcct tgtttatctg ctcagttgga tgactcaatt cttaacatag
      541 tgaaagacca catttttaag catggaacag tagcatctcg cccaccagta cagatagaag
      601 aactaataga gaaacctgga ggcatcattg tacgatggtg taaggtggat gatgacttta
      661 cagcccaaga ttacaggctc cagtttcgta aatgtacttc aaatcatttt gaggatgtat
      721 atgtaggttc tgaaactgaa ttcatagtat tgcacataga ccccaacgtt gattaccagt
      781 tcagagtctg cgcccgagga gatggccgac aggagtggag tccttggagt gtcccccaga
      841 taggtcattc cacattggtg cctcatgagt ggacagctgg ttttgagggg tacagtctga
      901 gcagtcgaag aaatatagca cttcggaacg attctgaatc atcgggtgtt ctctactcca
      961 gagctccgac ttatttctgt gggcagacat taacattcag agttgaaact gtgggacagc
     1021 cagacagaag agatagcata ggagtgtgtg cagaaaaaca ggatggatat gactctctgc
     1081 agcgggatca agctgtgtgc attagtacaa atggtgcagt ttttgtcaat ggaaaagaaa
     1141 tgacaaatca gttacccgca gttacttctg ggtccactgt cacgtttgac attgaagccg
     1201 tgactctagg aaccaccagt aataatgaag gtggacactt caagcttcga gtaactataa
     1261 gttcaaataa tagagaagtg gtttttgact ggttacttga tcagtcttgt ggttctcttt
     1321 actttggatg ctcatttttc tatcctggat ggaaagtgtt agtgttttag atgtttgggt
     1381 gcttggcttt ggttttcagg gtctaacgta gctgtcctca gcccagcgta gttgtaattg
     1441 ctttaaaaaa aaagttgaat tcatctctaa cttaggccat tggaaagtgt ttactggatt
     1501 cattttgtaa tattttagca aaaagagact tcaatgttgt ggacaaaatc atacaattca
     1561 gtcaatttta tttttagcat actgttaaat atcacatcac aataaaaatc aaattggcat
     1621 taaaagtata gaagatatag gaagttctat acccttccac tgtacttctc aaagttggtt
     1681 attagaccag gaaaacttaa tgtaatatta tttttaaaat catcttaaag gatccaagtc
     1741 catgtaactc tttagaacaa gaggaatagg tcagatagaa gaagctgtgt aatgtattaa
     1801 tacatccgtt catgtgctgt ccacatgaat gtgttgactg tgctctccat gttcaggtat
     1861 ttgtaagcag tgttgacttt tatcccctct tcagtaatct ttaagtcccc aaaacattat
     1921 aactttttct ttttttgttg agacggagtc tcactcttgt cactcaggct ggagtgcagt
     1981 ggtgtgatct cagttcactg caacctctgc ctcccacgtt caagcgatcc tcctgcctca
     2041 ggctcctgag tagctgggat tacaggcgtc ggccaccaca cctggctaat ttttgtattt
     2101 ttagtagaga cagggtttca ccatgttggc caggctggtc ttgaactcct gacctcaggt
     2161 gttccaccca cctcagcctt ccaaagtgct aggattacag gtgtgagcca ctgcagtgga
     2221 ccaatttttg tattttttta aatgcttgac caagtgtcta aaataggcaa gtagtacctt
     2281 ttgttctttc attgcaattt gatacagtat aggctacagt atttttacag ggtaaaacta
     2341 gttatggcag tagtatgcac agcagtgtta gccatttcat atgtatgtaa tatgcacgtg
     2401 tgtatccaat ctgcctgtga catgcatttt actctttgca gagaatgagc tgcagtccag
     2461 tttaatgtca gtttaataag tggtctcttt ttagcagagc aaaaaaatat agcgtaaata
     2521 cttatttttt ttaaaaactt acttaaattt gtgtgtaaaa tatttatttg aaggacttta
     2581 atatgtaaaa ataattgtct tctatgccac cctacagatt ttattttaat gtgaattatt
     2641 tttttcattt catttttacc agtatagtaa aaaagtagaa aagcaagtat gatatttttg
     2701 taagataatt tatttgggga ttcatgttcc ctgttagaca atcatgacct tttctacttg
     2761 tctttttata tataagtagt agatttccac ttgtttaggg attaagaaga tgttctagaa
     2821 tgtagatacc ttgtccagcc ataggaatca aaataaaaaa ctaaaaaagt tca
//
