LOCUS       NM_003693               3428 bp    mRNA    linear   PRI 06-JUN-2024
DEFINITION  Homo sapiens scavenger receptor class F member 1 (SCARF1),
            transcript variant 1, mRNA.
ACCESSION   NM_003693
VERSION     NM_003693.4
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 3428)
  AUTHORS   Jorge,A.M., Lao,T., Kim,R., Licciardi,S., El Khoury,J.,
            Luster,A.D., Means,T.K. and Ramirez-Ortiz,Z.G.
  TITLE     SCARF1-Induced Efferocytosis Plays an Immunomodulatory Role in
            Humans, and Autoantibodies Targeting SCARF1 Are Produced in
            Patients with Systemic Lupus Erythematosus
  JOURNAL   J Immunol 208 (4), 955-967 (2022)
   PUBMED   35082161
  REMARK    GeneRIF: SCARF1-Induced Efferocytosis Plays an Immunomodulatory
            Role in Humans, and Autoantibodies Targeting SCARF1 Are Produced in
            Patients with Systemic Lupus Erythematosus.
REFERENCE   2  (bases 1 to 3428)
  AUTHORS   Zhang,R., Peng,X., Lin,J., Zhang,Y., Zhan,L., Tian,X., Yin,J. and
            Zhao,G.
  TITLE     The Role of SREC- in Innate Immunity to Aspergillus fumigatus
            Keratitis
  JOURNAL   Invest Ophthalmol Vis Sci 62 (9), 12 (2021)
   PUBMED   34236384
  REMARK    GeneRIF: The Role of SREC- in Innate Immunity to Aspergillus
            fumigatus Keratitis.
REFERENCE   3  (bases 1 to 3428)
  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   4  (bases 1 to 3428)
  AUTHORS   Wicker-Planquart,C., Dufour,S., Tacnet-Delorme,P., Bally,I.,
            Delneste,Y., Frachet,P., Housset,D. and Thielens,N.M.
  TITLE     Molecular and Cellular Interactions of Scavenger Receptor SR-F1
            With Complement C1q Provide Insights Into Its Role in the Clearance
            of Apoptotic Cells
  JOURNAL   Front Immunol 11, 544 (2020)
   PUBMED   32296440
  REMARK    GeneRIF: Molecular and Cellular Interactions of Scavenger Receptor
            SR-F1 With Complement C1q Provide Insights Into Its Role in the
            Clearance of Apoptotic Cells.
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 3428)
  AUTHORS   Calderwood,S.K., Mambula,S.S., Gray,P.J. Jr. and Theriault,J.R.
  TITLE     Extracellular heat shock proteins in cell signaling
  JOURNAL   FEBS Lett 581 (19), 3689-3694 (2007)
   PUBMED   17499247
  REMARK    Review article
REFERENCE   6  (bases 1 to 3428)
  AUTHORS   Jeannin,P., Bottazzi,B., Sironi,M., Doni,A., Rusnati,M., Presta,M.,
            Maina,V., Magistrelli,G., Haeuw,J.F., Hoeffel,G., Thieblemont,N.,
            Corvaia,N., Garlanda,C., Delneste,Y. and Mantovani,A.
  TITLE     Complexity and complementarity of outer membrane protein A
            recognition by cellular and humoral innate immunity receptors
  JOURNAL   Immunity 22 (5), 551-560 (2005)
   PUBMED   15894273
REFERENCE   7  (bases 1 to 3428)
  AUTHORS   Ishii,J., Adachi,H., Aoki,J., Koizumi,H., Tomita,S., Suzuki,T.,
            Tsujimoto,M., Inoue,K. and Arai,H.
  TITLE     SREC-II, a new member of the scavenger receptor type F family,
            trans-interacts with SREC-I through its extracellular domain
  JOURNAL   J Biol Chem 277 (42), 39696-39702 (2002)
   PUBMED   12154095
  REMARK    GeneRIF: SRECI binds to SRECII and has a similar tissue
            distribution pattern
REFERENCE   8  (bases 1 to 3428)
  AUTHORS   Adachi,H. and Tsujimoto,M.
  TITLE     Characterization of the human gene encoding the scavenger receptor
            expressed by endothelial cell and its regulation by a novel
            transcription factor, endothelial zinc finger protein-2
  JOURNAL   J Biol Chem 277 (27), 24014-24021 (2002)
   PUBMED   11978792
  REMARK    GeneRIF: Characterization of the gene and its regulation by a novel
            transcription factor, endothelial zinc protein-2
REFERENCE   9  (bases 1 to 3428)
  AUTHORS   Dhaliwal,B.S. and Steinbrecher,U.P.
  TITLE     Scavenger receptors and oxidized low density lipoproteins
  JOURNAL   Clin Chim Acta 286 (1-2), 191-205 (1999)
   PUBMED   10511292
  REMARK    Review article
REFERENCE   10 (bases 1 to 3428)
  AUTHORS   Adachi,H., Tsujimoto,M., Arai,H. and Inoue,K.
  TITLE     Expression cloning of a novel scavenger receptor from human
            endothelial cells
  JOURNAL   J Biol Chem 272 (50), 31217-31220 (1997)
   PUBMED   9395444
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AK291810.1, AC130343.7 and
            CA434049.1.
            
            On Nov 23, 2018 this sequence version replaced NM_003693.3.
            
            Summary: The protein encoded by this gene is a scavenger receptor
            that is expressed in endothelial cells. It regulates the uptake of
            chemically modified low density lipoproteins, including acetylated
            low density lipoprotein (Ac-LDL), and it may be involved in
            atherogenesis. This gene is regulated by the transcription factors
            ZNF444/EZF-2 and SP1. Alternative splicing results in multiple
            transcript variants. [provided by RefSeq, Apr 2013].
            
            Transcript Variant: This variant (1) encodes the longer isoform
            (1).
            
            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 :: AK291810.1, BC039735.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000263071.9/ ENSP00000263071.4
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-1797              AK291810.1         1-1797
            1798-3005           AC130343.7         83795-85002         c
            3006-3428           CA434049.1         18-440              c
FEATURES             Location/Qualifiers
     source          1..3428
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="17"
                     /map="17p13.3"
     gene            1..3428
                     /gene="SCARF1"
                     /gene_synonym="SREC; SREC-I; SREC1"
                     /note="scavenger receptor class F member 1"
                     /db_xref="GeneID:8578"
                     /db_xref="HGNC:HGNC:16820"
                     /db_xref="MIM:607873"
     exon            1..136
                     /gene="SCARF1"
                     /gene_synonym="SREC; SREC-I; SREC1"
                     /inference="alignment:Splign:2.1.0"
     CDS             36..2528
                     /gene="SCARF1"
                     /gene_synonym="SREC; SREC-I; SREC1"
                     /note="isoform 1 precursor is encoded by transcript
                     variant 1; acetyl LDL receptor; scavenger receptor
                     expressed by endothelial cells 1"
                     /codon_start=1
                     /product="scavenger receptor class F member 1 isoform 1
                     precursor"
                     /protein_id="NP_003684.2"
                     /db_xref="CCDS:CCDS11007.1"
                     /db_xref="GeneID:8578"
                     /db_xref="HGNC:HGNC:16820"
                     /db_xref="MIM:607873"
                     /translation="MGLGLLLPLLLLWTRGTQGSELDPKGQHVCVASSPSAELQCCAG
                     WRQKDQECTIPICEGPDACQKDEVCVKPGLCRCKPGFFGAHCSSRCPGQYWGPDCRES
                     CPCHPHGQCEPATGACQCQADRWGARCEFPCACGPHGRCDPATGVCHCEPGWWSSTCR
                     RPCQCNTAAARCEQATGACVCKPGWWGRRCSFRCNCHGSPCEQDSGRCACRPGWWGPE
                     CQQQCECVRGRCSAASGECTCPPGFRGARCELPCPAGSHGVQCAHSCGRCKHNEPCSP
                     DTGSCESCEPGWNGTQCQQPCLPGTFGESCEQQCPHCRHGEACEPDTGHCQRCDPGWL
                     GPRCEDPCPTGTFGEDCGSTCPTCVQGSCDTVTGDCVCSAGYWGPSCNASCPAGFHGN
                     NCSVPCECPEGLCHPVSGSCQPGSGSRDTALIAGSLVPLLLLFLGLACCACCCWAPRS
                     DLKDRPARDGATVSRMKLQVWGTLTSLGSTLPCRSLSSHKLPWVTVSHHDPEVPFNHS
                     FIEPPSAGWATDDSFSSDPESGEADEVPAYCVPPQEGMVPVAQAGSSEASLAAGAFPP
                     PEDASTPFAIPRTSSLARAKRPSVSFAEGTKFAPQSRRSSGELSSPLRKPKRLSRGAQ
                     SGPEGREAEESTGPEEAEAPESFPAAASPGDSATGHRRPPLGGRTVAEHVEAIEGSVQ
                     ESSGPVTTIYMLAGKPRGSEGPVRSVFRHFGSFQKGQAEAKVKRAIPKPPRQALNRKK
                     GSPGLASGSVGQSPNSAPKAGLPGATGPMAVRPEEAVRGLGAGTESSRRAQEPVSGCG
                     SPEQDPQKQAEEERQEEPEYENVVPISRPPEP"
     exon            137..198
                     /gene="SCARF1"
                     /gene_synonym="SREC; SREC-I; SREC1"
                     /inference="alignment:Splign:2.1.0"
     exon            199..300
                     /gene="SCARF1"
                     /gene_synonym="SREC; SREC-I; SREC1"
                     /inference="alignment:Splign:2.1.0"
     exon            301..826
                     /gene="SCARF1"
                     /gene_synonym="SREC; SREC-I; SREC1"
                     /inference="alignment:Splign:2.1.0"
     exon            827..1045
                     /gene="SCARF1"
                     /gene_synonym="SREC; SREC-I; SREC1"
                     /inference="alignment:Splign:2.1.0"
     exon            1046..1174
                     /gene="SCARF1"
                     /gene_synonym="SREC; SREC-I; SREC1"
                     /inference="alignment:Splign:2.1.0"
     exon            1175..1278
                     /gene="SCARF1"
                     /gene_synonym="SREC; SREC-I; SREC1"
                     /inference="alignment:Splign:2.1.0"
     exon            1279..1399
                     /gene="SCARF1"
                     /gene_synonym="SREC; SREC-I; SREC1"
                     /inference="alignment:Splign:2.1.0"
     exon            1400..1521
                     /gene="SCARF1"
                     /gene_synonym="SREC; SREC-I; SREC1"
                     /inference="alignment:Splign:2.1.0"
     exon            1522..1668
                     /gene="SCARF1"
                     /gene_synonym="SREC; SREC-I; SREC1"
                     /inference="alignment:Splign:2.1.0"
     exon            1669..3428
                     /gene="SCARF1"
                     /gene_synonym="SREC; SREC-I; SREC1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3399..3404
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SCARF1"
                     /gene_synonym="SREC; SREC-I; SREC1"
                     /note="hexamer: AATAAA"
     polyA_site      3428
                     /gene="SCARF1"
                     /gene_synonym="SREC; SREC-I; SREC1"
                     /note="major polyA site"
ORIGIN      
        1 agacgaaccc gagcgctccc accgagctgc ctgccatggg gctggggctg ctgctcccgc
       61 tgctgctgct ctggactcgg gggactcagg ggtccgagct ggaccccaaa gggcagcacg
      121 tctgtgtggc cagcagcccc tctgctgagc tgcagtgctg cgcaggctgg aggcagaagg
      181 atcaagaatg caccatcccc atctgtgagg ggccggacgc ctgccagaaa gacgaggtgt
      241 gtgtgaagcc gggcctctgt cgatgcaagc ctggattctt tggggcccac tgcagctccc
      301 gctgcccggg ccagtactgg ggccccgact gccgtgagag ctgcccctgc cacccgcacg
      361 gccagtgcga gccagccacg ggcgcgtgcc agtgccaggc cgaccgctgg ggagcccgct
      421 gcgagttccc gtgcgcctgc ggcccccacg ggcgctgcga ccccgcgacc ggcgtgtgcc
      481 actgcgaacc cggctggtgg tcgtccacgt gccgccgccc gtgccagtgc aacaccgcgg
      541 cggcgcgctg cgagcaggcc acgggcgcct gcgtgtgcaa gccgggctgg tgggggcgcc
      601 gctgcagctt ccgctgcaac tgccacggct ccccgtgcga gcaggactcc ggccgctgcg
      661 cctgccggcc gggctggtgg ggtcccgaat gccagcagca gtgcgagtgt gtgcggggcc
      721 gctgcagcgc cgcctccggc gagtgcacct gcccgcccgg cttccgcgga gcgcgctgcg
      781 agctgccctg cccggcaggc agccacgggg tgcagtgcgc acacagctgt ggccgctgca
      841 aacacaatga gccgtgctct ccagacacag gcagctgtga gtcctgcgag ccgggctgga
      901 acgggaccca gtgccagcag ccctgcctgc ctggcacctt tggcgagagc tgcgaacagc
      961 agtgccctca ctgccgacat ggggaggcct gtgagccaga tactggccac tgtcagcgct
     1021 gtgaccctgg ctggctgggg cccaggtgtg aagacccctg ccccactggt acctttgggg
     1081 aagactgtgg ctctacctgc cccacctgtg ttcaggggtc ctgtgatact gtgacagggg
     1141 actgtgtctg cagtgccggc tactgggggc ccagctgcaa cgcctcctgc ccagccggtt
     1201 tccatggaaa caactgctca gttccttgtg aatgcccaga gggactctgc caccctgtct
     1261 ctgggtcctg ccagccaggc tctggcagtc gggacactgc cctcatcgcg ggcagccttg
     1321 tgcctctgct gctgctcttc ctgggccttg cctgctgtgc ctgctgctgc tgggcccccc
     1381 gatcagacct caaggacagg ccagcgagag atggagctac cgtgtccagg atgaagctgc
     1441 aggtctgggg gacactgacc agcttgggct ccacgctgcc ctgccgttcc ctcagctccc
     1501 acaagctacc ctgggtgaca gtctcacatc acgacccgga ggtccccttc aaccacagct
     1561 tcatcgagcc gccctctgcc ggctgggcca ctgatgactc cttctcatcc gatcctgagt
     1621 ctggagaggc agatgaggtt cctgcctact gtgtgccacc ccaagaaggg atggtccctg
     1681 tggcccaggc agggtcgtca gaggccagcc tggctgcagg tgctttcccg ccccctgagg
     1741 acgcctccac gccattcgcc atcccgcgca cctccagcct agctcgggcc aagcggccat
     1801 cggtctcctt cgcggaaggt accaagtttg caccacagag tcgccgaagc tcaggggagc
     1861 tctccagccc gctccgaaag cccaagaggc tctcccgggg ggcgcagtcg ggtcctgagg
     1921 gccgggaagc cgaagagtcc acaggcccag aggaagcaga agcccccgag tcctttccgg
     1981 cggctgccag tcccggggat tcagccactg gccaccggcg gcccccactt ggtggccgga
     2041 cagtggctga gcacgtggaa gccattgagg gcagcgtcca ggagagctcg ggccctgtga
     2101 ccacgatcta catgctggca gggaagcccc gcggatccga aggccctgtc cgctctgtct
     2161 tccgccattt tggtagcttc cagaaaggcc aggcggaagc caaggtcaag agggccatcc
     2221 ctaagcctcc gcgccaggcc ctgaatcgga aaaagggcag ccctggcctt gcctctggct
     2281 ctgtcggcca gagccccaac tcagccccaa aagctgggct tcctggggcc acagggccta
     2341 tggcagtcag accagaggaa gcggtccggg ggctgggggc tggcaccgag agttcaagga
     2401 gagcccagga gccagtctct ggctgtggct ccccagaaca ggatccccag aagcaggctg
     2461 aagaggaaag gcaggaggaa cctgagtatg agaatgttgt acccatctcc aggccaccag
     2521 aaccctgatg accttgaatt tggggagtgg ggagagtgga tggactagac tgtgctgtgt
     2581 gctggaaaat gatcccgggg ccaggacaga caaaccagag cctctgcgcc tccacaggga
     2641 aaaggcaagg cttccaggcc agttggccca ggcccctggc agtgctcccg gaggggccca
     2701 ggaaggcctg ggcagagacc ctgtaggatg gggtcaggaa gggttgcctg cagggacttt
     2761 tgctctgctg tcctggaccc tgtgtgcctc ataagggcta ttctttcttt cacgtgcaaa
     2821 acatttttct gaaatagcaa acaacctaca tgtttgctga taaaagattg gctaaacaaa
     2881 tttttttttt tttttttgag acagaatctc cctctgtccc ccaggctgga gtgcagtggt
     2941 gcgatctcgg ctcactgcaa gctctgcctc ccgggttcac gcccttctcc tgcctcagcc
     3001 tcccgagtag ctgggactac aggtgccctc caccacgctt ggctaatttt tttgtatatt
     3061 taatagagac agggtttcac catgttagcc aggatggtct cgatctcctg acctcgtgat
     3121 ccacctgcct cggcctccca aagtgctggg atgacaggca tgagccacca cgcctggtct
     3181 atgaactttt taaaaaggat gtatgtgtat aaaaacagat tcaagggaaa ggcactaaat
     3241 ggttttttcc tctggaagat gagattgtag gtgatattta ttttcttctg aaacttttgt
     3301 atagtttgca aattttctac agtgaacatt cttttttact tttgttacta gattgaattt
     3361 gataaagtat aataaaaagc aatgatcttt gttaaaaaaa taaaaagtac taacattaca
     3421 gacatgta
//
