LOCUS       NM_001173393            1623 bp    mRNA    linear   PRI 12-NOV-2024
DEFINITION  Homo sapiens hepatitis A virus cellular receptor 1 (HAVCR1),
            transcript variant 3, mRNA.
ACCESSION   NM_001173393
VERSION     NM_001173393.3
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 1623)
  AUTHORS   Du,X., Guo,Y., Zhao,X., Zhang,L., Fan,R. and Li,Y.
  TITLE     METTL3-mediated TIM1 promotes macrophage M1 polarization and
            inflammation through IGF2BP2-dependent manner
  JOURNAL   J Biochem Mol Toxicol 38 (10), e23845 (2024)
   PUBMED   39267336
  REMARK    GeneRIF: METTL3-mediated TIM1 promotes macrophage M1 polarization
            and inflammation through IGF2BP2-dependent manner.
REFERENCE   2  (bases 1 to 1623)
  AUTHORS   Ma,R., Zheng,X., Gu,T., Liu,Z., Hou,S., Sun,D., Ding,Y., Wang,F.,
            Ying,Q., Ma,X., Kang,H., Liu,R., Lian,J. and Wu,X.
  TITLE     T-cell immunoglobulin and mucin 1 (TIM-1) mediates infection of
            Hantaan virus in Jurkat T cells
  JOURNAL   Virus Res 346, 199394 (2024)
   PUBMED   38735439
  REMARK    GeneRIF: T-cell immunoglobulin and mucin 1 (TIM-1) mediates
            infection of Hantaan virus in Jurkat T cells.
REFERENCE   3  (bases 1 to 1623)
  AUTHORS   Habeichi,N.J., Amin,G., Lakkis,B., Kataya,R., Mericskay,M.,
            Booz,G.W. and Zouein,F.A.
  TITLE     Potential Alternative Receptors for SARS-CoV-2-Induced Kidney
            Damage: TLR-4, KIM-1/TIM-1, and CD147
  JOURNAL   Front Biosci (Landmark Ed) 29 (1), 8 (2024)
   PUBMED   38287815
  REMARK    GeneRIF: Potential Alternative Receptors for SARS-CoV-2-Induced
            Kidney Damage: TLR-4, KIM-1/TIM-1, and CD147.
            Review article
REFERENCE   4  (bases 1 to 1623)
  AUTHORS   Musial,K., Stojanowski,J., Miskiewicz-Bujna,J., Kalwak,K. and
            Ussowicz,M.
  TITLE     KIM-1, IL-18, and NGAL, in the Machine Learning Prediction of
            Kidney Injury among Children Undergoing Hematopoietic Stem Cell
            Transplantation-A Pilot Study
  JOURNAL   Int J Mol Sci 24 (21), 15791 (2023)
   PUBMED   37958774
  REMARK    GeneRIF: KIM-1, IL-18, and NGAL, in the Machine Learning Prediction
            of Kidney Injury among Children Undergoing Hematopoietic Stem Cell
            Transplantation-A Pilot Study.
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 1623)
  AUTHORS   McIntire,J.J., Umetsu,S.E., Macaubas,C., Hoyte,E.G., Cinnioglu,C.,
            Cavalli-Sforza,L.L., Barsh,G.S., Hallmayer,J.F., Underhill,P.A.,
            Risch,N.J., Freeman,G.J., DeKruyff,R.H. and Umetsu,D.T.
  TITLE     Immunology: hepatitis A virus link to atopic disease
  JOURNAL   Nature 425 (6958), 576 (2003)
   PUBMED   14534576
  REMARK    GeneRIF: protective effects of hepatitis A virus on atopic disease
            depends on a common TIM-1 allele
REFERENCE   6  (bases 1 to 1623)
  AUTHORS   Noguchi,E., Nakayama,J., Kamioka,M., Ichikawa,K., Shibasaki,M. and
            Arinami,T.
  TITLE     Insertion/deletion coding polymorphisms in hHAVcr-1 are not
            associated with atopic asthma in the Japanese population
  JOURNAL   Genes Immun 4 (2), 170-173 (2003)
   PUBMED   12618867
  REMARK    GeneRIF: Polymorphisms in hHAVcr-1 are not associated with atopic
            asthma in the Japanese population.
REFERENCE   7  (bases 1 to 1623)
  AUTHORS   Bailly,V., Zhang,Z., Meier,W., Cate,R., Sanicola,M. and
            Bonventre,J.V.
  TITLE     Shedding of kidney injury molecule-1, a putative adhesion protein
            involved in renal regeneration
  JOURNAL   J Biol Chem 277 (42), 39739-39748 (2002)
   PUBMED   12138159
  REMARK    GeneRIF: shedding of KIM-1 in the regenerating kidney constitutes
            an active mechanism allowing dedifferentiated regenerating cells to
            scatter on basement membrane and reconstitute a continuous
            epithelial layer
REFERENCE   8  (bases 1 to 1623)
  AUTHORS   McIntire,J.J., Umetsu,S.E., Akbari,O., Potter,M., Kuchroo,V.K.,
            Barsh,G.S., Freeman,G.J., Umetsu,D.T. and DeKruyff,R.H.
  TITLE     Identification of Tapr (an airway hyperreactivity regulatory locus)
            and the linked Tim gene family
  JOURNAL   Nat Immunol 2 (12), 1109-1116 (2001)
   PUBMED   11725301
  REMARK    GeneRIF: asthma susceptibility gene
REFERENCE   9  (bases 1 to 1623)
  AUTHORS   Feigelstock,D., Thompson,P., Mattoo,P., Zhang,Y. and Kaplan,G.G.
  TITLE     The human homolog of HAVcr-1 codes for a hepatitis A virus cellular
            receptor
  JOURNAL   J Virol 72 (8), 6621-6628 (1998)
   PUBMED   9658108
REFERENCE   10 (bases 1 to 1623)
  AUTHORS   Thompson,P., Lu,J. and Kaplan,G.G.
  TITLE     The Cys-rich region of hepatitis A virus cellular receptor 1 is
            required for binding of hepatitis A virus and protective monoclonal
            antibody 190/4
  JOURNAL   J Virol 72 (5), 3751-3761 (1998)
   PUBMED   9557657
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AC026777.4, AK298259.1,
            AF043724.1 and BC013325.1.
            This sequence is a reference standard in the RefSeqGene project.
            
            On May 17, 2019 this sequence version replaced NM_001173393.2.
            
            Summary: The protein encoded by this gene is a membrane receptor
            for both human hepatitis A virus (HHAV) and TIMD4. The encoded
            protein may be involved in the moderation of asthma and allergic
            diseases. The reference genome represents an allele that retains a
            MTTVP amino acid segment that confers protection against atopy in
            HHAV seropositive individuals. The protein is a receptor for
            multiple other viruses, including Ebola virus, Marburg virus,
            Dengue virus, and Zika virus and is a possible entry factor for
            SARS-CoV-2 and other coronaviruses. [provided by RefSeq, Sep 2021].
            
            Transcript Variant: This variant (3) differs in the 5' UTR compared
            to variant 1. Both variants 1 and 3 encode isoform a.
            
            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 :: AF043724.1, SRR14243140.6389705.1
                                           [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            coronavirus related    :: involved in SARS-CoV-2 infection
            MANE Ensembl match     :: ENST00000523175.6/ ENSP00000427898.1
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-8                 AC026777.4         117173-117180       c
            9-157               AK298259.1         12-160
            158-339             AF043724.1         1-182
            340-829             BC013325.1         300-789
            830-1339            AF043724.1         658-1167
            1340-1623           AK298259.1         1415-1698
FEATURES             Location/Qualifiers
     source          1..1623
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="5"
                     /map="5q33.3"
     gene            1..1623
                     /gene="HAVCR1"
                     /gene_synonym="CD365; HAVCR; HAVCR-1; KIM-1; KIM1; TIM;
                     TIM-1; TIM1; TIMD-1; TIMD1"
                     /note="hepatitis A virus cellular receptor 1"
                     /db_xref="GeneID:26762"
                     /db_xref="HGNC:HGNC:17866"
                     /db_xref="MIM:606518"
     exon            1..196
                     /gene="HAVCR1"
                     /gene_synonym="CD365; HAVCR; HAVCR-1; KIM-1; KIM1; TIM;
                     TIM-1; TIM1; TIMD-1; TIMD1"
                     /inference="alignment:Splign:2.1.0"
     exon            197..254
                     /gene="HAVCR1"
                     /gene_synonym="CD365; HAVCR; HAVCR-1; KIM-1; KIM1; TIM;
                     TIM-1; TIM1; TIMD-1; TIMD1"
                     /inference="alignment:Splign:2.1.0"
     CDS             209..1303
                     /gene="HAVCR1"
                     /gene_synonym="CD365; HAVCR; HAVCR-1; KIM-1; KIM1; TIM;
                     TIM-1; TIM1; TIMD-1; TIMD1"
                     /note="isoform a precursor is encoded by transcript
                     variant 3; kidney injury molecule 1; T-cell membrane
                     protein 1; T cell immunoglobin domain and mucin domain
                     protein 1; T-cell immunoglobulin mucin receptor 1; T-cell
                     immunoglobulin mucin family member 1"
                     /codon_start=1
                     /product="hepatitis A virus cellular receptor 1 isoform a
                     precursor"
                     /protein_id="NP_001166864.1"
                     /db_xref="CCDS:CCDS43392.1"
                     /db_xref="GeneID:26762"
                     /db_xref="HGNC:HGNC:17866"
                     /db_xref="MIM:606518"
                     /translation="MHPQVVILSLILHLADSVAGSVKVGGEAGPSVTLPCHYSGAVTS
                     MCWNRGSCSLFTCQNGIVWTNGTHVTYRKDTRYKLLGDLSRRDVSLTIENTAVSDSGV
                     YCCRVEHRGWFNDMKITVSLEIVPPKVTTTPIVTTVPTVTTVRTSTTVPTTTTVPMTT
                     VPTTTVPTTMSIPTTTTVLTTMTVSTTTSVPTTTSIPTTTSVPVTTTVSTFVPPMPLP
                     RQNHEPVATSPSSPQPAETHPTTLQGAIRREPTSSPLYSYTTDGNDTVTESSDGLWNN
                     NQTQLFLEHSLLTANTTKGIYAGVCISVLVLLALLGVIIAKKYFFKKEVQQLSVSFSS
                     LQIKALQNAVEKEVQAEDNIYIENSLYATD"
     exon            255..587
                     /gene="HAVCR1"
                     /gene_synonym="CD365; HAVCR; HAVCR-1; KIM-1; KIM1; TIM;
                     TIM-1; TIM1; TIMD-1; TIMD1"
                     /inference="alignment:Splign:2.1.0"
     exon            588..881
                     /gene="HAVCR1"
                     /gene_synonym="CD365; HAVCR; HAVCR-1; KIM-1; KIM1; TIM;
                     TIM-1; TIM1; TIMD-1; TIMD1"
                     /inference="alignment:Splign:2.1.0"
     exon            882..989
                     /gene="HAVCR1"
                     /gene_synonym="CD365; HAVCR; HAVCR-1; KIM-1; KIM1; TIM;
                     TIM-1; TIM1; TIMD-1; TIMD1"
                     /inference="alignment:Splign:2.1.0"
     exon            990..1045
                     /gene="HAVCR1"
                     /gene_synonym="CD365; HAVCR; HAVCR-1; KIM-1; KIM1; TIM;
                     TIM-1; TIM1; TIMD-1; TIMD1"
                     /inference="alignment:Splign:2.1.0"
     exon            1046..1160
                     /gene="HAVCR1"
                     /gene_synonym="CD365; HAVCR; HAVCR-1; KIM-1; KIM1; TIM;
                     TIM-1; TIM1; TIMD-1; TIMD1"
                     /inference="alignment:Splign:2.1.0"
     exon            1161..1194
                     /gene="HAVCR1"
                     /gene_synonym="CD365; HAVCR; HAVCR-1; KIM-1; KIM1; TIM;
                     TIM-1; TIM1; TIMD-1; TIMD1"
                     /inference="alignment:Splign:2.1.0"
     exon            1195..1623
                     /gene="HAVCR1"
                     /gene_synonym="CD365; HAVCR; HAVCR-1; KIM-1; KIM1; TIM;
                     TIM-1; TIM1; TIMD-1; TIMD1"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 gctattactg catatgatgt aggtttagtt ttccaagttc ttccgtggcc ctttttgctt
       61 attatatcaa tccttggtgg gagatagagg aagcattttt agtgctattt tacaactgag
      121 gaaatagagg tttgaagaga actcaggaac tctcagggtt acccagcatt gtgagtgaca
      181 gagcctggat ctgaacgctg atcccataat gcatcctcaa gtggtcatct taagcctcat
      241 cctacatctg gcagattctg tagctggttc tgtaaaggtt ggtggagagg caggtccatc
      301 tgtcacacta ccctgccact acagtggagc tgtcacatcc atgtgctgga atagaggctc
      361 atgttctcta ttcacatgcc aaaatggcat tgtctggacc aatggaaccc acgtcaccta
      421 tcggaaggac acacgctata agctattggg ggacctttca agaagggatg tctctttgac
      481 catagaaaat acagctgtgt ctgacagtgg cgtatattgt tgccgtgttg agcaccgtgg
      541 gtggttcaat gacatgaaaa tcaccgtatc attggagatt gtgccaccca aggtcacgac
      601 tactccaatt gtcacaactg ttccaaccgt cacgactgtt cgaacgagca ccactgttcc
      661 aacgacaacg actgttccaa tgacgactgt tccaacgaca actgttccaa caacaatgag
      721 cattccaacg acaacgactg ttctgacgac aatgactgtt tcaacgacaa cgagcgttcc
      781 aacgacaacg agcattccaa caacaacaag tgttccagtg acaacaactg tctctacctt
      841 tgttcctcca atgcctttgc ccaggcagaa ccatgaacca gtagccactt caccatcttc
      901 acctcagcca gcagaaaccc accctacgac actgcaggga gcaataagga gagaacccac
      961 cagctcacca ttgtactctt acacaacaga tgggaatgac accgtgacag agtcttcaga
     1021 tggcctttgg aataacaatc aaactcaact gttcctagaa catagtctac tgacggccaa
     1081 taccactaaa ggaatctatg ctggagtctg tatttctgtc ttggtgcttc ttgctctttt
     1141 gggtgtcatc attgccaaaa agtatttctt caaaaaggag gttcaacaac taagtgtttc
     1201 atttagcagc cttcaaatta aagctttgca aaatgcagtt gaaaaggaag tccaagcaga
     1261 agacaatatc tacattgaga atagtcttta tgccacggac taagacccag tggtgctctt
     1321 tgagagttta cgcccatgag tgcagaagac tgaacagaca tcagcacatc agacgtcttt
     1381 tagaccccaa gacaattttt ctgtttcagt ttcatctggc attccaacat gtcagtgata
     1441 ctgggtagag taactctctc actccaaact gtgtatagtc aacctcatca ttaatgtagt
     1501 cctaattttt tatgctaaaa ctggctcaat ccttctgatc attgcagttt tctctcaaat
     1561 atgaacactt tataattgta tgttcttttt agaccccata aatcctgtat acatcaaaga
     1621 gaa
//
