LOCUS       NM_006110               3361 bp    mRNA    linear   PRI 20-FEB-2025
DEFINITION  Homo sapiens CD2 cytoplasmic tail binding protein 2 (CD2BP2),
            transcript variant 1, mRNA.
ACCESSION   NM_006110
VERSION     NM_006110.3
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 3361)
  AUTHORS   Khoroshkin,M., Buyan,A., Dodel,M., Navickas,A., Yu,J., Trejo,F.,
            Doty,A., Baratam,R., Zhou,S., Lee,S.B., Joshi,T., Garcia,K.,
            Choi,B., Miglani,S., Subramanyam,V., Modi,H., Carpenter,C.,
            Markett,D., Corces,M.R., Mardakheh,F.K., Kulakovskiy,I.V. and
            Goodarzi,H.
  TITLE     Systematic identification of post-transcriptional regulatory
            modules
  JOURNAL   Nat Commun 15 (1), 7872 (2024)
   PUBMED   39251607
  REMARK    Erratum:[Nat Commun. 2024 Oct 28;15(1):9277. doi:
            10.1038/s41467-024-52903-4.. PMID: 39468017]
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 3361)
  AUTHORS   Riabov Bassat,D., Visanpattanasin,S., Vorlander,M.K., Fin,L.,
            Phillips,A.W. and Plaschka,C.
  TITLE     Structural basis of human U5 snRNP late biogenesis and recycling
  JOURNAL   Nat Struct Mol Biol 31 (5), 747-751 (2024)
   PUBMED   38467876
REFERENCE   3  (bases 1 to 3361)
  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 3361)
  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 3361)
  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   6  (bases 1 to 3361)
  AUTHORS   Freund,C., Dotsch,V., Nishizawa,K., Reinherz,E.L. and Wagner,G.
  TITLE     The GYF domain is a novel structural fold that is involved in
            lymphoid signaling through proline-rich sequences
  JOURNAL   Nat Struct Biol 6 (7), 656-660 (1999)
   PUBMED   10404223
REFERENCE   7  (bases 1 to 3361)
  AUTHORS   Nishizawa,K., Freund,C., Li,J., Wagner,G. and Reinherz,E.L.
  TITLE     Identification of a proline-binding motif regulating CD2-triggered
            T lymphocyte activation
  JOURNAL   Proc Natl Acad Sci U S A 95 (25), 14897-14902 (1998)
   PUBMED   9843987
REFERENCE   8  (bases 1 to 3361)
  AUTHORS   Dustin,M.L., Olszowy,M.W., Holdorf,A.D., Li,J., Bromley,S.,
            Desai,N., Widder,P., Rosenberger,F., van der Merwe,P.A., Allen,P.M.
            and Shaw,A.S.
  TITLE     A novel adaptor protein orchestrates receptor patterning and
            cytoskeletal polarity in T-cell contacts
  JOURNAL   Cell 94 (5), 667-677 (1998)
   PUBMED   9741631
REFERENCE   9  (bases 1 to 3361)
  AUTHORS   Behrens,S.E. and Luhrmann,R.
  TITLE     Immunoaffinity purification of a [U4/U6.U5] tri-snRNP from human
            cells
  JOURNAL   Genes Dev 5 (8), 1439-1452 (1991)
   PUBMED   1831175
REFERENCE   10 (bases 1 to 3361)
  AUTHORS   Bach,M., Winkelmann,G. and Luhrmann,R.
  TITLE     20S small nuclear ribonucleoprotein U5 shows a surprisingly complex
            protein composition
  JOURNAL   Proc Natl Acad Sci U S A 86 (16), 6038-6042 (1989)
   PUBMED   2527369
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from CB135964.1, BC001947.1 and
            AB033004.1.
            
            On Nov 23, 2018 this sequence version replaced NM_006110.2.
            
            Summary: This gene encodes a bi-functional protein. In the
            cytoplasm, the encoded protein binds the cytoplasmic tail of human
            surface antigen CD2 via its C-terminal GYF domain, and regulate
            CD2-triggered T lymphocyte activation. In the nucleus, this protein
            is a component of the U5 small nuclear ribonucleoprotein complex
            and is involved in RNA splicing. A pseudogene has been identified
            on chromosome 7. Alternative splicing results in multiple
            transcript variants but their biological validity has not been
            determined. [provided by RefSeq, Nov 2008].
            
            Transcript Variant: This variant (1) represents the shorter and
            more abundant transcript. Variants 1 and 2 encode the same 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 :: SRR1660805.218207.1,
                                           SRR1803614.124003.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000305596.8/ ENSP00000304903.3
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-48                CB135964.1         56-103
            49-1287             BC001947.1         1-1239
            1288-3361           AB033004.1         515-2588
FEATURES             Location/Qualifiers
     source          1..3361
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="16"
                     /map="16p11.2"
     gene            1..3361
                     /gene="CD2BP2"
                     /gene_synonym="FWP010; LIN1; PPP1R59; Snu40; U5-52K"
                     /note="CD2 cytoplasmic tail binding protein 2"
                     /db_xref="GeneID:10421"
                     /db_xref="HGNC:HGNC:1656"
                     /db_xref="MIM:604470"
     exon            1..97
                     /gene="CD2BP2"
                     /gene_synonym="FWP010; LIN1; PPP1R59; Snu40; U5-52K"
                     /inference="alignment:Splign:2.1.0"
     exon            98..201
                     /gene="CD2BP2"
                     /gene_synonym="FWP010; LIN1; PPP1R59; Snu40; U5-52K"
                     /inference="alignment:Splign:2.1.0"
     CDS             124..1149
                     /gene="CD2BP2"
                     /gene_synonym="FWP010; LIN1; PPP1R59; Snu40; U5-52K"
                     /note="U5 snRNP 52K protein; CD2 cytoplasmic
                     domain-binding protein 2; protein phosphatase 1,
                     regulatory subunit 59"
                     /codon_start=1
                     /product="CD2 antigen cytoplasmic tail-binding protein 2"
                     /protein_id="NP_006101.1"
                     /db_xref="CCDS:CCDS10675.1"
                     /db_xref="GeneID:10421"
                     /db_xref="HGNC:HGNC:1656"
                     /db_xref="MIM:604470"
                     /translation="MPKRKVTFQGVGDEEDEDEIIVPKKKLVDPVAGSGGPGSRFKGK
                     HSLDSDEEEDDDDGGSSKYDILASEDVEGQEAATLPSEGGVRITPFNLQEEMEEGHFD
                     ADGNYFLNRDAQIRDSWLDNIDWVKIRERPPGQRQASDSEEEDSLGQTSMSAQALLEG
                     LLELLLPRETVAGALRRLGARGGGKGRKGPGQPSSPQRLDRLSGLADQMVARGNLGVY
                     QETRERLAMRLKGLGCQTLGPHNPTPPPSLDMFAEELAEEELETPTPTQRGEAESRGD
                     GLVDVMWEYKWENTGDAELYGPFTSAQMQTWVSEGYFPDGVYCRKLDPPGGQFYNSKR
                     IDFDLYT"
     exon            202..340
                     /gene="CD2BP2"
                     /gene_synonym="FWP010; LIN1; PPP1R59; Snu40; U5-52K"
                     /inference="alignment:Splign:2.1.0"
     exon            341..498
                     /gene="CD2BP2"
                     /gene_synonym="FWP010; LIN1; PPP1R59; Snu40; U5-52K"
                     /inference="alignment:Splign:2.1.0"
     exon            499..931
                     /gene="CD2BP2"
                     /gene_synonym="FWP010; LIN1; PPP1R59; Snu40; U5-52K"
                     /inference="alignment:Splign:2.1.0"
     exon            932..1038
                     /gene="CD2BP2"
                     /gene_synonym="FWP010; LIN1; PPP1R59; Snu40; U5-52K"
                     /inference="alignment:Splign:2.1.0"
     exon            1039..3361
                     /gene="CD2BP2"
                     /gene_synonym="FWP010; LIN1; PPP1R59; Snu40; U5-52K"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1266..1271
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CD2BP2"
                     /gene_synonym="FWP010; LIN1; PPP1R59; Snu40; U5-52K"
                     /note="hexamer: AATAAA"
     polyA_site      1287
                     /gene="CD2BP2"
                     /gene_synonym="FWP010; LIN1; PPP1R59; Snu40; U5-52K"
                     /note="major polyA site"
     regulatory      3340..3345
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CD2BP2"
                     /gene_synonym="FWP010; LIN1; PPP1R59; Snu40; U5-52K"
                     /note="hexamer: AATAAA"
     polyA_site      3361
                     /gene="CD2BP2"
                     /gene_synonym="FWP010; LIN1; PPP1R59; Snu40; U5-52K"
                     /note="major polyA site"
ORIGIN      
        1 gcagtcctct tccgggtgat ggcggccggg tgccccggat gtagccctgg cgcaagcatc
       61 tcttcttttt tccacctcgc cttccgcgga ttcccagctt gagaaacacc tctttgcccc
      121 gtcatgccaa agaggaaagt gaccttccaa ggcgtgggag atgaggagga tgaggatgaa
      181 atcattgtcc ccaagaagaa gctggtggac cctgtggctg ggtcaggggg tcctgggagc
      241 cgctttaaag gcaaacactc tttggatagc gatgaggagg aggatgatga tgatgggggg
      301 tccagcaaat atgacatctt ggcctcagag gatgtagaag gtcaggaggc agccacactc
      361 cccagcgagg ggggtgttcg gatcacaccc tttaacctgc aggaggagat ggaggaaggc
      421 cactttgatg ccgatggcaa ctacttcctg aaccgggatg ctcagatccg agacagctgg
      481 ctggacaaca ttgactgggt gaagatccgg gagcggccac ctggccagcg ccaggcctca
      541 gactcggagg aggaggacag cttgggccag acctcaatga gtgcccaagc cctcttggag
      601 ggacttttgg agctcctatt gcctagagag acagtggctg gggcactgag gcgtctgggg
      661 gcccgaggag gaggcaaagg gagaaagggg cctgggcaac ccagttcccc tcagcgcctg
      721 gaccggctct ccgggttggc cgaccagatg gtggcccggg gcaaccttgg tgtgtaccag
      781 gaaacaaggg aacggttggc tatgcgtctg aagggtttgg ggtgtcagac cctaggaccc
      841 cacaatccca cacccccacc ctccctggac atgttcgctg aggagttggc ggaggaggaa
      901 ctggagaccc caacccctac ccagagagga gaagcagagt cgcggggaga tggtctggtg
      961 gatgtgatgt gggaatataa gtgggagaac acgggggatg ccgagctgta tgggcccttc
     1021 accagcgccc agatgcagac ctgggtgagt gaaggctact tcccggacgg tgtttattgc
     1081 cggaagctgg acccccctgg tggtcagttc tacaactcca aacgcattga ctttgacctc
     1141 tacacctgag cctgctgggg gcccagtttg gtgggccctt ctttcctgga ctttgtggag
     1201 gaggcaccaa gtgtctcagg cagcgaggaa attggaggcc atttttcagt caatttccct
     1261 ttcccaataa aagcctttag ttgtgtactg gggccttggc tgtgctgatg gccagaagcc
     1321 aggggccttc tccacagtcc ctttggactt gtcttggtcc ctgagtactc ccatgaagat
     1381 ccttcttgga ggtgcctgtc aggtatcctg tggcctccct gcctggactc tgcttgccgt
     1441 gtaaacaccc ccaactgcgc tgctctgtgc tcctctccca ggtttcttgt tcgattcctc
     1501 ttaggtcttt ggctttcagg acctcagatt ctttatcctt gtagccacca gaggacagag
     1561 ccccagaagt ggatgtttta ggcccagaag gaccagggca tcgagaagac attgggaccc
     1621 tgttgggggt gagcatggaa ccctcttact ctcgcttcac cctctcaagc tccttagatg
     1681 ctgggcagaa gtgggatgag tggcccaaga ccgagatccc taaggttctg agagccagtg
     1741 tcttccctaa tctggctttc ctctatcctt gccgtcgttc ccacagccct tcagtgaagt
     1801 gcaaactcag tggccaagtg tgggccaagt gtgcattgta ctggcacaga gaggggcagt
     1861 gactcactgg agatcacagg aatcaaaggg ctggcccaga cccagtgggc tcctttccca
     1921 gacctttctt ggcacaaagc ctttgctgcc tggccttgga ggccctgcgg cctacattct
     1981 ctggacccca ctatgtgcct ggcacagggc tagtgccttg aggaaactga ggtagctggg
     2041 ttggtcccct tccaggaatt cagagtctgg tggcaggggc atgggaaata gacagatgta
     2101 attctatagc ctgggcctgg caccctccac ctccacgccc caccagcatt gccttacgcc
     2161 tcccttgccc cacgttagat ggtttcttcc ggttttgcac tctggctgcc ccttggagtc
     2221 tcctggggag ctgtaatatc tctttggaga ttcagattga gctggtctag gttgtggccc
     2281 aggcattggg cattttggaa gcccccaggt gttttcagct tgcagccagg ccgagagaga
     2341 gcccctgagt cagatcccca tggtttaggc acacctagcg ggaggggtgg ctcctggacc
     2401 ccaccgtggt tggagagctg agcatgtgtg tggctttagt ggggtctgtt agttatgggg
     2461 gtctgggcac tggagctgca ggacacttgg gatcccaggt cagaaagggc cagatgagca
     2521 actaggaaag acttgggggc cagggcggag tggggtcacc tgacactctt gtgaggcccc
     2581 ttctagtgcc tgctcacacc ggaatttcat tcactccaag aagccatcag gggtaagata
     2641 ccttccttta aacgtcacta agaaagaaga ggcctgccgg tgacacagta agatgccatt
     2701 gatctaaaga tgcgtcttga tttcagaaag gtccggaagt ggaaagcagg tttcagggct
     2761 gctgaggtac agggttctcc tgtaggcccc agggatggtc tcaggggtgc tgagtgcgtg
     2821 cgtggtaaat ggatggagcc caggggcgcc tcctgccagt gtcctccagg cactcaaacc
     2881 tagcccttct gaagccgacc tcacgtgacc tcacagcccc tcctgaaggc gcctcactga
     2941 tgacggtggg tggaataaca gcccccagag atgtccaggt ttggaacccc aggacgtggg
     3001 aaagtgttac cttgcgtggc aaaagggacc cggcgcctgt gcttcagttc aggatttcgt
     3061 ggtggggaga tgaccgtgga tggttgaggt gggccctgag taatcatggg ggcccttata
     3121 agggaagggg agtcacgagg gtctgcgcat gaagcaagga agcttctggc tgtgaagatg
     3181 gcaagaaggc ctggggccag gcgatgaggt ggcccctgga ggagctggaa aaggcattgg
     3241 attctgcccc agagcctccg tggagaaaca aagccgcact gacaagactt cagcctggtg
     3301 aaaaccattt tggactcctg acctctagaa ctgtaagata ataaattggt gtggttttca
     3361 a
//
