LOCUS       NM_000616               3049 bp    mRNA    linear   PRI 11-FEB-2025
DEFINITION  Homo sapiens CD4 molecule (CD4), transcript variant 1, mRNA.
ACCESSION   NM_000616
VERSION     NM_000616.5
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 3049)
  AUTHORS   Tenggara,J.B., Rachman,A., Prihartono,J., Rachmadi,L.,
            Panigoro,S.S., Heriyanto,D.S., Sutandyo,N., Nasution,I.R.,
            Rahadiati,F.B., Steven,R., Betsy,R., Juanputra,S. and Sudoyo,A.W.
  TITLE     The relationship between high ratios of CD4/FOXP3 and CD8/CD163 and
            the improved survivability of metastatic triple-negative breast
            cancer patients: a multicenter cohort study
  JOURNAL   BMC Res Notes 17 (1), 44 (2024)
   PUBMED   38308298
  REMARK    GeneRIF: The relationship between high ratios of CD4/FOXP3 and
            CD8/CD163 and the improved survivability of metastatic
            triple-negative breast cancer patients: a multicenter cohort study.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 3049)
  AUTHORS   Asri,N., Nazemalhosseini Mojarad,E., Taleghani,M.Y., Houri,H.,
            Saeedi Niasar,M., Rezaei-Tavirani,M., Jahani-Sherafat,S.,
            Shahbazkhani,A., Nikzamir,A., Ehsani Ardakani,M.J., Khodadost,M.
            and Rostami-Nejad,M.
  TITLE     Evaluating CD4 and Foxp3 mRNA Expression in Tissue Specimens of
            Celiac Disease and Colorectal Cancer Patients
  JOURNAL   Asian Pac J Cancer Prev 25 (2), 647-652 (2024)
   PUBMED   38415552
  REMARK    GeneRIF: Evaluating CD4 and Foxp3 mRNA Expression in Tissue
            Specimens of Celiac Disease and Colorectal Cancer Patients.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 3049)
  AUTHORS   Dam,K.A., Fan,C., Yang,Z. and Bjorkman,P.J.
  TITLE     Intermediate conformations of CD4-bound HIV-1 Env heterotrimers
  JOURNAL   Nature 623 (7989), 1017-1025 (2023)
   PUBMED   37993719
  REMARK    GeneRIF: Intermediate conformations of CD4-bound HIV-1 Env
            heterotrimers.
            Erratum:[Nature. 2024 Feb;626(7998):E7. doi:
            10.1038/s41586-024-07082-z.. PMID: 38243106]
REFERENCE   4  (bases 1 to 3049)
  AUTHORS   Li,W., Qin,Z., Nand,E., Grunst,M.W., Grover,J.R., Bess,J.W. Jr.,
            Lifson,J.D., Zwick,M.B., Tagare,H.D., Uchil,P.D. and Mothes,W.
  TITLE     HIV-1 Env trimers asymmetrically engage CD4 receptors in membranes
  JOURNAL   Nature 623 (7989), 1026-1033 (2023)
   PUBMED   37993716
  REMARK    GeneRIF: HIV-1 Env trimers asymmetrically engage CD4 receptors in
            membranes.
REFERENCE   5  (bases 1 to 3049)
  AUTHORS   Veatch,J.R. and Riddell,S.R.
  TITLE     Stem-cell-like CD4+ T cells prey on MHC class II-negative tumors
  JOURNAL   Nat Immunol 24 (8), 1212-1214 (2023)
   PUBMED   37460640
  REMARK    GeneRIF: Stem-cell-like CD4[+] T cells prey on MHC class
            II-negative tumors.
REFERENCE   6  (bases 1 to 3049)
  AUTHORS   Willey,R.L., Maldarelli,F., Martin,M.A. and Strebel,K.
  TITLE     Human immunodeficiency virus type 1 Vpu protein induces rapid
            degradation of CD4
  JOURNAL   J Virol 66 (12), 7193-7200 (1992)
   PUBMED   1433512
REFERENCE   7  (bases 1 to 3049)
  AUTHORS   Fomsgaard,A., Hirsch,V.M. and Johnson,P.R.
  TITLE     Cloning and sequences of primate CD4 molecules: diversity of the
            cellular receptor for simian immunodeficiency virus/human
            immunodeficiency virus
  JOURNAL   Eur J Immunol 22 (11), 2973-2981 (1992)
   PUBMED   1425921
REFERENCE   8  (bases 1 to 3049)
  AUTHORS   Crise,B. and Rose,J.K.
  TITLE     Identification of palmitoylation sites on CD4, the human
            immunodeficiency virus receptor
  JOURNAL   J Biol Chem 267 (19), 13593-13597 (1992)
   PUBMED   1618861
REFERENCE   9  (bases 1 to 3049)
  AUTHORS   Seong,R.H., Chamberlain,J.W. and Parnes,J.R.
  TITLE     Signal for T-cell differentiation to a CD4 cell lineage is
            delivered by CD4 transmembrane region and/or cytoplasmic tail
  JOURNAL   Nature 356 (6371), 718-720 (1992)
   PUBMED   1533274
REFERENCE   10 (bases 1 to 3049)
  AUTHORS   Wang,J.H., Yan,Y.W., Garrett,T.P., Liu,J.H., Rodgers,D.W.,
            Garlick,R.L., Tarr,G.E., Husain,Y., Reinherz,E.L. and Harrison,S.C.
  TITLE     Atomic structure of a fragment of human CD4 containing two
            immunoglobulin-like domains
  JOURNAL   Nature 348 (6300), 411-418 (1990)
   PUBMED   1701030
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AC125494.2 and U47924.1.
            This sequence is a reference standard in the RefSeqGene project.
            
            On Nov 23, 2018 this sequence version replaced NM_000616.4.
            
            Summary: This gene encodes the CD4 membrane glycoprotein of T
            lymphocytes. The CD4 antigen acts as a coreceptor with the T-cell
            receptor on the T lymphocyte to recognize antigens displayed by an
            antigen presenting cell in the context of class II MHC molecules.
            The CD4 antigen is also a primary receptor for entry of the human
            immunodeficiency virus through interactions with the HIV Env gp120
            subunit. This gene is expressed not only in T lymphocytes, but also
            in B cells, macrophages, granulocytes, as well as in various
            regions of the brain. The protein functions to initiate or augment
            the early phase of T-cell activation, and may function as an
            important mediator of indirect neuronal damage in infectious and
            immune-mediated diseases of the central nervous system. Multiple
            alternatively spliced transcript variants encoding different
            isoforms have been identified in this gene. [provided by RefSeq,
            May 2020].
            
            Transcript Variant: This variant (1) encodes the longest isoform
            (1) including a signal peptide and a mature peptide.
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data to make the sequence consistent with the
            reference genome assembly. The genomic coordinates used for the
            transcript record were based on transcript alignments.
            
            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 :: SRR1803611.170077.1,
                                           SRR1803617.62474.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            coronavirus related    :: relevant for COVID-19 prognosis
            MANE Ensembl match     :: ENST00000011653.9/ ENSP00000011653.4
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-135               AC125494.2         8753-8887           c
            136-251             U47924.1           12084-12199
            252-416             U47924.1           12319-12483
            417-575             U47924.1           26154-26312
            576-809             U47924.1           26771-27004
            810-1157            U47924.1           28068-28415
            1158-1358           U47924.1           29142-29342
            1359-1480           U47924.1           30433-30554
            1481-1548           U47924.1           30859-30926
            1549-3049           U47924.1           31311-32811
FEATURES             Location/Qualifiers
     source          1..3049
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="12"
                     /map="12p13.31"
     gene            1..3049
                     /gene="CD4"
                     /gene_synonym="CD4mut; IMD79; Leu-3; OKT4D; T4"
                     /note="CD4 molecule"
                     /db_xref="GeneID:920"
                     /db_xref="HGNC:HGNC:1678"
                     /db_xref="MIM:186940"
     exon            1..135
                     /gene="CD4"
                     /gene_synonym="CD4mut; IMD79; Leu-3; OKT4D; T4"
                     /inference="alignment:Splign:2.1.0"
     exon            136..251
                     /gene="CD4"
                     /gene_synonym="CD4mut; IMD79; Leu-3; OKT4D; T4"
                     /inference="alignment:Splign:2.1.0"
     CDS             203..1579
                     /gene="CD4"
                     /gene_synonym="CD4mut; IMD79; Leu-3; OKT4D; T4"
                     /note="isoform 1 precursor is encoded by transcript
                     variant 1; CD4 antigen (p55); CD4 receptor; T-cell surface
                     antigen T4/Leu-3"
                     /codon_start=1
                     /product="T-cell surface glycoprotein CD4 isoform 1
                     precursor"
                     /protein_id="NP_000607.1"
                     /db_xref="CCDS:CCDS8562.1"
                     /db_xref="GeneID:920"
                     /db_xref="HGNC:HGNC:1678"
                     /db_xref="MIM:186940"
                     /translation="MNRGVPFRHLLLVLQLALLPAATQGKKVVLGKKGDTVELTCTAS
                     QKKSIQFHWKNSNQIKILGNQGSFLTKGPSKLNDRADSRRSLWDQGNFPLIIKNLKIE
                     DSDTYICEVEDQKEEVQLLVFGLTANSDTHLLQGQSLTLTLESPPGSSPSVQCRSPRG
                     KNIQGGKTLSVSQLELQDSGTWTCTVLQNQKKVEFKIDIVVLAFQKASSIVYKKEGEQ
                     VEFSFPLAFTVEKLTGSGELWWQAERASSSKSWITFDLKNKEVSVKRVTQDPKLQMGK
                     KLPLHLTLPQALPQYAGSGNLTLALEAKTGKLHQEVNLVVMRATQLQKNLTCEVWGPT
                     SPKLMLSLKLENKEAKVSKREKAVWVLNPEAGMWQCLLSDSGQVLLESNIKVLPTWST
                     PVQPMALIVLGGVAGLLLFIGLGIFFCVRCRHRRRQAERMSQIKRLLSEKKTCQCPHR
                     FQKTCSPI"
     exon            252..416
                     /gene="CD4"
                     /gene_synonym="CD4mut; IMD79; Leu-3; OKT4D; T4"
                     /inference="alignment:Splign:2.1.0"
     exon            417..575
                     /gene="CD4"
                     /gene_synonym="CD4mut; IMD79; Leu-3; OKT4D; T4"
                     /inference="alignment:Splign:2.1.0"
     exon            576..809
                     /gene="CD4"
                     /gene_synonym="CD4mut; IMD79; Leu-3; OKT4D; T4"
                     /inference="alignment:Splign:2.1.0"
     exon            810..1157
                     /gene="CD4"
                     /gene_synonym="CD4mut; IMD79; Leu-3; OKT4D; T4"
                     /inference="alignment:Splign:2.1.0"
     exon            1158..1358
                     /gene="CD4"
                     /gene_synonym="CD4mut; IMD79; Leu-3; OKT4D; T4"
                     /inference="alignment:Splign:2.1.0"
     exon            1359..1480
                     /gene="CD4"
                     /gene_synonym="CD4mut; IMD79; Leu-3; OKT4D; T4"
                     /inference="alignment:Splign:2.1.0"
     exon            1481..1548
                     /gene="CD4"
                     /gene_synonym="CD4mut; IMD79; Leu-3; OKT4D; T4"
                     /inference="alignment:Splign:2.1.0"
     exon            1549..3049
                     /gene="CD4"
                     /gene_synonym="CD4mut; IMD79; Leu-3; OKT4D; T4"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3028..3033
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CD4"
                     /gene_synonym="CD4mut; IMD79; Leu-3; OKT4D; T4"
                     /note="hexamer: AATAAA"
     polyA_site      3049
                     /gene="CD4"
                     /gene_synonym="CD4mut; IMD79; Leu-3; OKT4D; T4"
                     /note="major polyA site"
ORIGIN      
        1 ctctcttcat ttaagcacga ctctgcagaa ggaacaaagc accctcccca ctgggctcct
       61 ggttgcagag ctccaagtcc tcacacagat acgcctgttt gagaagcagc gggcaagaaa
      121 gacgcaagcc cagaggccct gccatttctg tgggctcagg tccctactgg ctcaggcccc
      181 tgcctccctc ggcaaggcca caatgaaccg gggagtccct tttaggcact tgcttctggt
      241 gctgcaactg gcgctcctcc cagcagccac tcagggaaag aaagtggtgc tgggcaaaaa
      301 aggggataca gtggaactga cctgtacagc ttcccagaag aagagcatac aattccactg
      361 gaaaaactcc aaccagataa agattctggg aaatcagggc tccttcttaa ctaaaggtcc
      421 atccaagctg aatgatcgcg ctgactcaag aagaagcctt tgggaccaag gaaactttcc
      481 cctgatcatc aagaatctta agatagaaga ctcagatact tacatctgtg aagtggagga
      541 ccagaaggag gaggtgcaat tgctagtgtt cggattgact gccaactctg acacccacct
      601 gcttcagggg cagagcctga ccctgacctt ggagagcccc cctggtagta gcccctcagt
      661 gcaatgtagg agtccaaggg gtaaaaacat acaggggggg aagaccctct ccgtgtctca
      721 gctggagctc caggatagtg gcacctggac atgcactgtc ttgcagaacc agaagaaggt
      781 ggagttcaaa atagacatcg tggtgctagc tttccagaag gcctccagca tagtctataa
      841 gaaagagggg gaacaggtgg agttctcctt cccactcgcc tttacagttg aaaagctgac
      901 gggcagtggc gagctgtggt ggcaggcgga gagggcttcc tcctccaagt cttggatcac
      961 ctttgacctg aagaacaagg aagtgtctgt aaaacgggtt acccaggacc ctaagctcca
     1021 gatgggcaag aagctcccgc tccacctcac cctgccccag gccttgcctc agtatgctgg
     1081 ctctggaaac ctcaccctgg cccttgaagc gaaaacagga aagttgcatc aggaagtgaa
     1141 cctggtggtg atgagagcca ctcagctcca gaaaaatttg acctgtgagg tgtggggacc
     1201 cacctcccct aagctgatgc tgagtttgaa actggagaac aaggaggcaa aggtctcgaa
     1261 gcgggagaag gcggtgtggg tgctgaaccc tgaggcgggg atgtggcagt gtctgctgag
     1321 tgactcggga caggtcctgc tggaatccaa catcaaggtt ctgcccacat ggtccacccc
     1381 ggtgcagcca atggccctga ttgtgctggg gggcgtcgcc ggcctcctgc ttttcattgg
     1441 gctaggcatc ttcttctgtg tcaggtgccg gcaccgaagg cgccaagcag agcggatgtc
     1501 tcagatcaag agactcctca gtgagaagaa gacctgccag tgtcctcacc ggtttcagaa
     1561 gacatgtagc cccatttgag gcacgaggcc aggcagatcc cacttgcagc ctccccaggt
     1621 gtctgccccg cgtttcctgc ctgcggacca gatgaatgta gcagatcccc agcctctggc
     1681 ctcctgttcg cctcctctac aatttgccat tgtttctcct gggttaggcc ccggcttcac
     1741 tggttgagtg ttgctctcta gtttccagag gcttaatcac accgtcctcc acgccatttc
     1801 cttttccttc aagcctagcc cttctctcat tatttctctc tgaccctctc cccactgctc
     1861 atttggatcc caggggagtg ttcagggcca gccctggctg gcatggaggg tgaggctggg
     1921 tgtctggaag catggagcat gggactgttc ttttacaaga caggaccctg ggaccacaga
     1981 gggcaggaac ttgcacaaaa tcacacagcc aagccagtca aggatggatg cagatccaga
     2041 ggtttctggc agccagtacc tcctgcccca tgctgcccgc ttctcaccct atgtgggtgg
     2101 gaccacagac tcacatcctg accttgcaca aacagcccct ctggacacag ccccatgtac
     2161 acggcctcaa gggatgtctc acatcctctg tctatttgag acttagaaaa atcctacaag
     2221 gctggcagtg acagaactaa gatgatcatc tccagtttat agaccagaac cagagctcag
     2281 agaggctaga tgattgatta ccaagtgccg gactagcaag tgctggagtc gggactaacc
     2341 caggtccctt gtcccaagtt ccactgctgc ctcttgaatg cagggacaaa tgccacacgg
     2401 ctctcaccag tggctagtgg tgggtactca atgtgtactt ttgggttcac agaagcacag
     2461 cacccatggg aagggtccat ctcagagaat ttacgagcag ggatgaaggc ctccctgtct
     2521 aaaatccctc cttcatcccc cgctggtggc agaatctgtt accagaggac aaagcctttg
     2581 gctcttctaa tcagagcgca agctgggagc acaggcactg caggagagaa tgcccagtga
     2641 ccagtcactg accctgtgca gaacctcctg gaagcgagct ttgctgggag agggggtagc
     2701 tagcctgaga gggaaccctc taagggacct caaaggtgat tgtgccaggc tctgcgcctg
     2761 ccccacaccc tcccttaccc tcctccagac cattcaggac acagggaaat cagggttaca
     2821 aatcttcttg atccacttct ctcaggatcc cctctcttcc tacccttcct caccacttcc
     2881 ctcagtccca actccttttc cctatttcct tctcctcctg tctttaaagc ctgcctcttc
     2941 caggaagacc cccctattgc tgctggggct ccccatttgc ttactttgca tttgtgccca
     3001 ctctccaccc ctgctcccct gagctgaaat aaaaatacaa taaacttac
//
