LOCUS       NM_001400821            4789 bp    mRNA    linear   ROD 12-JUN-2024
DEFINITION  Mus musculus SR-related CTD-associated factor 1 (Scaf1), transcript
            variant 4, mRNA.
ACCESSION   NM_001400821 XM_006540821
VERSION     NM_001400821.1
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Mus musculus (house mouse)
  ORGANISM  Mus musculus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Mus; Mus.
REFERENCE   1  (bases 1 to 4789)
  AUTHORS   Sapkota,M., DeVasure,J.M., Kharbanda,K.K. and Wyatt,T.A.
  TITLE     Malondialdehyde-acetaldehyde (MAA) adducted surfactant protein
            induced lung inflammation is mediated through scavenger receptor a
            (SR-A1)
  JOURNAL   Respir Res 18 (1), 36 (2017)
   PUBMED   28193223
  REMARK    GeneRIF: Overall, the data demonstrate that SR-A1/CD204 plays an
            important role in SPD-MAA induced inflammation in lung.
            Publication Status: Online-Only
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC126256.4.
            
            On Jan 27, 2022 this sequence version replaced XM_006540821.5.
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on alignments.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR9219379.22895.1,
                                           SRR9219383.1434.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164131, SAMN01164141
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-649               AC126256.4         59638-60286         c
            650-780             AC126256.4         58378-58508         c
            781-894             AC126256.4         57653-57766         c
            895-952             AC126256.4         57390-57447         c
            953-1050            AC126256.4         56871-56968         c
            1051-1151           AC126256.4         56498-56598         c
            1152-1267           AC126256.4         56296-56411         c
            1268-3934           AC126256.4         50479-53145         c
            3935-4017           AC126256.4         50014-50096         c
            4018-4236           AC126256.4         49578-49796         c
            4237-4365           AC126256.4         47670-47798         c
            4366-4789           AC126256.4         47121-47544         c
FEATURES             Location/Qualifiers
     source          1..4789
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="7"
                     /map="7 29.07 cM"
     gene            1..4789
                     /gene="Scaf1"
                     /gene_synonym="SR-A1"
                     /note="SR-related CTD-associated factor 1"
                     /db_xref="GeneID:233208"
                     /db_xref="MGI:MGI:2141980"
     exon            1..649
                     /gene="Scaf1"
                     /gene_synonym="SR-A1"
                     /inference="alignment:Splign:2.1.0"
     exon            650..780
                     /gene="Scaf1"
                     /gene_synonym="SR-A1"
                     /inference="alignment:Splign:2.1.0"
     exon            781..894
                     /gene="Scaf1"
                     /gene_synonym="SR-A1"
                     /inference="alignment:Splign:2.1.0"
     CDS             787..4557
                     /gene="Scaf1"
                     /gene_synonym="SR-A1"
                     /note="isoform 1 is encoded by transcript variant 4;
                     splicing factor, arginine/serine-rich 19; SR-related and
                     CTD-associated factor 1; serine arginine-rich pre-mRNA
                     splicing factor SR-A1"
                     /codon_start=1
                     /product="splicing factor, arginine/serine-rich 19 isoform
                     1"
                     /protein_id="NP_001387750.1"
                     /db_xref="GeneID:233208"
                     /db_xref="MGI:MGI:2141980"
                     /translation="MEEEDESRGKTEESGEDRGDGPPDRDPALSPSAFILRAIQQAVG
                     SSLQGDLPNDKDGARCRGLRWRRCCRSPRSEPRSQESGAADTATVLDTAADSFLVELV
                     SILDPPDTWVPSRLDLQPGESEDMLELVAEVRIGDRDPMPLPVPSLFPRLRAWRTGKT
                     VSPQSHASRPACSRHLTLGTGDGGPAPPPAPSSASSSPSPSPSSSSPSPPPPPPPPPP
                     PALPAPRFDIYDPFHPTDEAYSPPPAPEQKYDPFEPTGSNPSSSAGTPSPEEEEEEEE
                     EEEEEGLSQSISRISETLAGIYDDNSLSQDFPGDDSPRREPPPPQTLGAPGTPPQADS
                     TRAEGAPRRRVFVLGPEAEACHEGKVSVEVVTAGAPALSLPPLPPTDPEIEEGEIVQP
                     EEEPRVAVSLFRAARPRQPPASVATLASVAAPAAPPASAPRAPEGDDFLSLHADSDGE
                     GALQVDLGEPPAPPAADARWGGLDLRRKILTQRRERYRQRSASPGPPPARKKARRERQ
                     RSGDPAPPDSPSWEAKKHRSRERKLGSHSTARRRSRSRSRRRSRSRSADRRRGGHRSR
                     SREKRRRRRRSASPPPAASSSSSSRRERHRGKRREGGKKKKKRSRSRAEKRSGDLEKL
                     PASVPPSGSDRDSRRRGAVPPSIQDLTDHDLFAIKRTITVGRPDKAEPRAPSPAPAVS
                     PKREVLYDSEGLSADERGGKSDKDRRRSGAASSSSSSREKGSRRKALDGDRGRDRDRS
                     SKKTRPPKDSTPGSGPLPKAPPSSGSSSSSSSCSSRKVKLQSKVAVLIREGVSSTTPA
                     KDSSSSGLGSIGVKFSRDRESRSPFLKPDERAPAEVAKVAPGSNKPKKTKAKAKAGAK
                     KAKGTKGKTKPSKTRKKVRSGGSSTASGGPGSLKKSKADSCSQAASAKGTEETSWSGE
                     ERTTKAPSTPPPKVAPPPPALTPDSQTVDSSCKTPEVSFLPEEASEDTGVRVGAEEEE
                     EEEEEEEEEEEQQPATTTATSTAAAAPSTAPSAGSTAGDSGAEDGPAARISQLPTLPP
                     PMPWNLPAGVDCTTSGVLALTALLFKMEEANLASRAKAQELIQATNQILSHRKPSSTL
                     GVTPAPVPTSLGLPPGPSSYLLPGSLPIGGCGSTPPTPTGLAPASDKREGSSSSEGRG
                     DTDKYLKKLHTQERAVEEVKLAIKPYYQKKDITKEEYKDILRKAVHKICHSKSGEINP
                     VKVSNLVRAYVQRYRYFRKHGRKPGDPPGPPRPPKEPGPPDKGGPGLPLPPL"
     exon            895..952
                     /gene="Scaf1"
                     /gene_synonym="SR-A1"
                     /inference="alignment:Splign:2.1.0"
     exon            953..1050
                     /gene="Scaf1"
                     /gene_synonym="SR-A1"
                     /inference="alignment:Splign:2.1.0"
     exon            1051..1151
                     /gene="Scaf1"
                     /gene_synonym="SR-A1"
                     /inference="alignment:Splign:2.1.0"
     exon            1152..1267
                     /gene="Scaf1"
                     /gene_synonym="SR-A1"
                     /inference="alignment:Splign:2.1.0"
     exon            1268..3934
                     /gene="Scaf1"
                     /gene_synonym="SR-A1"
                     /inference="alignment:Splign:2.1.0"
     exon            3935..4017
                     /gene="Scaf1"
                     /gene_synonym="SR-A1"
                     /inference="alignment:Splign:2.1.0"
     exon            4018..4236
                     /gene="Scaf1"
                     /gene_synonym="SR-A1"
                     /inference="alignment:Splign:2.1.0"
     exon            4237..4365
                     /gene="Scaf1"
                     /gene_synonym="SR-A1"
                     /inference="alignment:Splign:2.1.0"
     exon            4366..4789
                     /gene="Scaf1"
                     /gene_synonym="SR-A1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      4768..4773
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Scaf1"
                     /gene_synonym="SR-A1"
                     /note="hexamer: ATTAAA"
     polyA_site      4789
                     /gene="Scaf1"
                     /gene_synonym="SR-A1"
                     /note="major polyA site"
ORIGIN      
        1 gcgccgggac cggagccgca gcccgagcgg cggggtaaga tggcggcggc ggtccgggcc
       61 gcggggctcg ggcctatcgg ggtgggcggg gcggagtcgg gtcgctagtc gtctccgagt
      121 gtcgcccgta tgccacgggg cctggagagc gtagcgtggc accttcggac ccggctgcag
      181 cggccaaggc agtctctgag tagggggcct tcttagggcc ccggacgcgc ccgtgggtgc
      241 cagagggctt tcgtatggcc tggaccgcga ctaggccggc cctccttccc attgctgagc
      301 ctggacacgt ctgcaggcgc cgtagatggt ttttatgtgc gaccgtaggc tagggtctgt
      361 tgagaggctt ttggggccat cttgagatct tcactccccc aggagttaag ggggtctgca
      421 gagtcaccta gttcactggg gtgtatttgt tagggctggg aagtctctcc tcatgctggc
      481 ctctgcattc ggctcatcta catggatctg ggaccattta tgaggcctgg aagctctctt
      541 caaggactag gaagtgttaa ggtccacctg gaagaaagag atgtactccc acctagggag
      601 agggaagcaa gctttgtgat gtgcccagag gcataaatga gtcgctaagc ctcaatcaag
      661 acatccacca gtctgaagga tgctctttca actacctgac tgggcactca aagctcagaa
      721 ttcccgtgac atcaccgagg ctttggccat gcttccacag gacaggcagc tgggtgatag
      781 gtgaccatgg aggaggaaga tgagtctcga ggtaaaacag aggagtcggg agaggatcgg
      841 ggagacggtc cacctgacag agatcctgcc ctttctcctt ctgcctttat tttgcgggcc
      901 attcagcagg ctgtgggaag ctcccttcag ggagacctgc ctaatgataa agatggcgct
      961 cggtgtcgtg gcctacgatg gaggcgctgc tgccggagtc ctcggtcaga gcctcgttca
     1021 caggagtcag gggctgctga cacggccact gtattggaca cagctgcaga tagcttcctt
     1081 gtggagctgg tgagcatcct ggatcccccg gacacctggg ttcccagccg cctggacctt
     1141 cagcctggcg aaagtgagga catgctagag ctggtggctg aggtccgcat cggtgacagg
     1201 gaccccatgc ctctacctgt gcccagcctg tttccccgcc tcagggcctg gaggacagga
     1261 aagacagttt ctccacagtc ccatgcatct cgacctgcct gttcccgtca cctcaccttg
     1321 ggcacagggg atggagggcc tgctccacca cctgccccct cctctgcctc ctcctcccct
     1381 tccccttccc catcttcatc ttcaccttct cctcctcctc ctcctccacc cccacctccc
     1441 ccagctctgc ctgccccgag attcgacatc tatgatccct tccaccccac cgatgaggcc
     1501 tactccccgc cgccagcccc agagcaaaaa tatgacccct ttgagcccac gggctccaat
     1561 cccagctcat cagctgggac accctcacca gaggaagaag aggaagagga ggaggaggaa
     1621 gaagaagagg gtctgtcaca gagcatcagc cgcatctcag aaaccctggc tggcatctac
     1681 gatgacaaca gcttgagcca ggacttccca ggtgacgata gcccccgccg ggaaccccca
     1741 cccccgcaga cgctgggagc cccagggacg ccaccccagg ctgactctac tcgggccgaa
     1801 ggggccccgc gccgcagggt ctttgtgttg ggacctgagg ctgaggcctg ccatgagggc
     1861 aaggtttcgg tggaagtcgt aacggctggt gcaccagcgc tttcgctgcc accactaccc
     1921 ccgactgacc cggagataga ggagggcgag attgtgcagc ctgaggagga gcccagggtg
     1981 gcagtttcac tgttccgtgc tgcacgacct cgtcagcctc ctgcctctgt agccaccttg
     2041 gcttcggtgg ccgcccctgc tgcgccccca gcctctgcac cacgtgcccc tgagggtgat
     2101 gacttcctgt cactacatgc tgactctgat ggcgagggcg cactgcaagt ggacctaggt
     2161 gagccacctg caccaccggc cgctgatgcc cgctggggcg gcctggacct gcgccgcaag
     2221 atcctaacac agcgacgtga gcgctaccgc cagcgctctg cctcgccagg cccacctcct
     2281 gctcggaaga aggctagacg ggagcggcag cgcagcgggg accctgcacc accggattca
     2341 ccctcctggg aagctaagaa gcaccgttca cgtgagcgca agcttggttc acactccacg
     2401 gcccggcgtc gatcacgctc ccgttctcgc cgcagatcac gctcccgcag cgctgaccgc
     2461 agacgtgggg gtcaccgctc acgttcccgg gagaaacgca ggcgccgacg gcgctcagcc
     2521 tctccacctc cagcagcatc ttcctcatcc tcctcacgac gtgaacggca ccggggcaag
     2581 cggcgcgaag gtggcaagaa gaagaagaag cgctcacgct cccgggcaga gaagcgttct
     2641 ggggacttgg agaagctgcc cgcatcagtg cctccctcag gctctgaccg tgacagccga
     2701 cgccgagggg ccgtgccacc ctctatccag gacctcacag atcacgacct gttcgccatc
     2761 aaacggacca tcacagtagg tcgccccgac aaagcggagc cacgcgcacc ttcaccagca
     2821 cctgctgtgt ccccgaagcg ggaggtcctg tatgactctg agggtctgag tgctgacgag
     2881 cggggtggca agagtgacaa ggaccggagg cgttcagggg ctgcatcctc atcttcatcc
     2941 tcaagggaga aagggtctcg acggaaggcc ctcgatgggg accggggccg agacagggat
     3001 aggtcatcca agaagacgcg gccacctaag gactcgacgc ctggctccgg gccactgccc
     3061 aaagcccccc caagcagtgg ctcctcgtcc tcctcgtcct cctgctcctc tcgcaaggta
     3121 aaactgcagt ccaaggtggc tgtgctcatc cgagagggcg tcagcagcac cacccctgcc
     3181 aaggattcct cgtcttcagg cctgggctcc attggggtca agttcagccg tgaccgtgag
     3241 agccgctcac cattcctcaa gccggatgag cgggctcctg cagaggtggc caaggtggcc
     3301 ccgggtagca acaagcccaa aaagaccaag gccaaggcca aggctggggc caagaaagcc
     3361 aaggggacca agggaaagac gaagccttcg aagacgagga agaaggttcg cagcggaggc
     3421 agtagcacgg ccagcggtgg gcctggctca ctgaagaagt ccaaggccga cagctgcagt
     3481 caggcagcaa gtgccaaggg gacagaggaa acatcatggt caggggagga gcggaccacc
     3541 aaggccccca gtaccccacc acctaaggtg gccccacctc cacccgcact caccccggac
     3601 tcccagactg tggatagcag ctgcaagacc cctgaagtct ccttcctacc agaggaagcc
     3661 agtgaggaca ctggggtccg agtaggggca gaggaggagg aggaagagga ggaagaagag
     3721 gaagaggagg aggagcagca acctgccact accacagcca ccagcaccgc tgcagctgcc
     3781 ccaagcactg cccccagtgc agggtctaca gccggagact ctggcgcaga ggatgggcca
     3841 gctgctagga tctcccagct gccaacgcta cccccaccca tgccctggaa cctgcctgct
     3901 ggtgtggact gtactaccag tggtgtcctg gccttgactg cactgctgtt caagatggaa
     3961 gaagccaacc tggccagccg cgcaaaggcc caggagctga tccaggccac caaccagatt
     4021 ctcagccacc ggaagccatc atccactctt ggggtgaccc cagctcccgt gcccacttcc
     4081 ttgggtctgc ccccaggccc ctccagctac ctacttcctg gcagcctccc cataggaggc
     4141 tgtggctcta cccctcctac ccccactggg ctagcccctg catctgacaa gagagagggc
     4201 agcagcagct cagagggacg tggggacact gacaagtacc tgaagaagct ccacacacag
     4261 gagcgggcag tagaggaggt gaagttggcc atcaagccat actaccagaa gaaagacatc
     4321 accaaggagg agtacaagga catcctgagg aaggctgtcc acaagatctg ccacagcaag
     4381 agcggggaga tcaaccctgt caaggtgagc aatctggtga gggcctacgt ccagcgctac
     4441 cgctacttcc gcaagcacgg tcgcaagccg ggggaccccc caggacctcc tcggccaccc
     4501 aaggaaccag ggcccccaga caagggtggc ccaggcctgc ccctgccccc tctctgagat
     4561 ccttaccctg tccctgtgcc tctgagattc tggacatatt tatggctcca cttccccact
     4621 acgccccccc ccccccagtg ggatgatggg gaaggttgct gtgaggaaga ggagagcccc
     4681 ccacccagcc gtgttcctgc ccgttgacct agcccttcag cctgcccccg acagccccag
     4741 cccttctgtc atgccccctc caatttcatt aaagatttca tgaagtaca
//
