LOCUS       NM_011410               3958 bp    mRNA    linear   ROD 30-APR-2024
DEFINITION  Mus musculus schlafen 4 (Slfn4), transcript variant 1, mRNA.
ACCESSION   NM_011410 XM_126110
VERSION     NM_011410.3
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 3958)
  AUTHORS   Adams,D.J., Barlas,B., McIntyre,R.E., Salguero,I., van der
            Weyden,L., Barros,A., Vicente,J.R., Karimpour,N., Haider,A.,
            Ranzani,M., Turner,G., Thompson,N.A., Harle,V., Olvera-Leon,R.,
            Robles-Espinoza,C.D., Speak,A.O., Geisler,N., Weninger,W.J.,
            Geyer,S.H., Hewinson,J., Karp,N.A., Fu,B., Yang,F., Kozik,Z.,
            Choudhary,J., Yu,L., van Ruiten,M.S., Rowland,B.D., Lelliott,C.J.,
            Del Castillo Velasco-Herrera,M., Verstraten,R., Bruckner,L.,
            Henssen,A.G., Rooimans,M.A., de Lange,J., Mohun,T.J., Arends,M.J.,
            Kentistou,K.A., Coelho,P.A., Zhao,Y., Zecchini,H., Perry,J.R.B.,
            Jackson,S.P. and Balmus,G.
  CONSRTM   Sanger Mouse Genetics Project
  TITLE     Genetic determinants of micronucleus formation in vivo
  JOURNAL   Nature 627 (8002), 130-136 (2024)
   PUBMED   38355793
REFERENCE   2  (bases 1 to 3958)
  AUTHORS   Ding,L., Sheriff,S., Sontz,R.A. and Merchant,J.L.
  TITLE     Schlafen4+-MDSC in Helicobacter-induced gastric metaplasia reveals
            role for GTPases
  JOURNAL   Front Immunol 14, 1139391 (2023)
   PUBMED   37334372
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 3958)
  AUTHORS   Dickinson,M.E., Flenniken,A.M., Ji,X., Teboul,L., Wong,M.D.,
            White,J.K., Meehan,T.F., Weninger,W.J., Westerberg,H., Adissu,H.,
            Baker,C.N., Bower,L., Brown,J.M., Caddle,L.B., Chiani,F., Clary,D.,
            Cleak,J., Daly,M.J., Denegre,J.M., Doe,B., Dolan,M.E., Edie,S.M.,
            Fuchs,H., Gailus-Durner,V., Galli,A., Gambadoro,A., Gallegos,J.,
            Guo,S., Horner,N.R., Hsu,C.W., Johnson,S.J., Kalaga,S., Keith,L.C.,
            Lanoue,L., Lawson,T.N., Lek,M., Mark,M., Marschall,S., Mason,J.,
            McElwee,M.L., Newbigging,S., Nutter,L.M., Peterson,K.A.,
            Ramirez-Solis,R., Rowland,D.J., Ryder,E., Samocha,K.E.,
            Seavitt,J.R., Selloum,M., Szoke-Kovacs,Z., Tamura,M., Trainor,A.G.,
            Tudose,I., Wakana,S., Warren,J., Wendling,O., West,D.B., Wong,L.,
            Yoshiki,A., MacArthur,D.G., Tocchini-Valentini,G.P., Gao,X.,
            Flicek,P., Bradley,A., Skarnes,W.C., Justice,M.J., Parkinson,H.E.,
            Moore,M., Wells,S., Braun,R.E., Svenson,K.L., de Angelis,M.H.,
            Herault,Y., Mohun,T., Mallon,A.M., Henkelman,R.M., Brown,S.D.,
            Adams,D.J., Lloyd,K.C., McKerlie,C., Beaudet,A.L., Bucan,M. and
            Murray,S.A.
  CONSRTM   International Mouse Phenotyping Consortium; Jackson Laboratory;
            Infrastructure Nationale PHENOMIN, Institut Clinique de la Souris
            (ICS); Charles River Laboratories; MRC Harwell; Toronto Centre for
            Phenogenomics; Wellcome Trust Sanger Institute; RIKEN BioResource
            Center
  TITLE     High-throughput discovery of novel developmental phenotypes
  JOURNAL   Nature 537 (7621), 508-514 (2016)
   PUBMED   27626380
  REMARK    Erratum:[Nature. 2017 Nov 16;551(7680):398. PMID: 29144450]
REFERENCE   4  (bases 1 to 3958)
  AUTHORS   Ding,L., Hayes,M.M., Photenhauer,A., Eaton,K.A., Li,Q.,
            Ocadiz-Ruiz,R. and Merchant,J.L.
  TITLE     Schlafen 4-expressing myeloid-derived suppressor cells are induced
            during murine gastric metaplasia
  JOURNAL   J Clin Invest 126 (8), 2867-2880 (2016)
   PUBMED   27427984
  REMARK    GeneRIF: SLFN4 marks a GLI1-dependent population of myeloid-derived
            suppressor cells that predict a shift in the gastric mucosa to a
            metaplastic phenotype
REFERENCE   5  (bases 1 to 3958)
  AUTHORS   Mavrommatis,E., Arslan,A.D., Sassano,A., Hua,Y., Kroczynska,B. and
            Platanias,L.C.
  TITLE     Expression and regulatory effects of murine Schlafen (Slfn) genes
            in malignant melanoma and renal cell carcinoma
  JOURNAL   J Biol Chem 288 (46), 33006-33015 (2013)
   PUBMED   24089532
  REMARK    GeneRIF: several mouse Slfn genes are up-regulated in response to
            IFN treatment of mouse melanoma and renal cell carcinoma cells,
            including Slfn1, Slfn2, Slfn4, Slfn5, and Slfn8.
REFERENCE   6  (bases 1 to 3958)
  AUTHORS   van Zuylen,W.J., Garceau,V., Idris,A., Schroder,K., Irvine,K.M.,
            Lattin,J.E., Ovchinnikov,D.A., Perkins,A.C., Cook,A.D.,
            Hamilton,J.A., Hertzog,P.J., Stacey,K.J., Kellie,S., Hume,D.A. and
            Sweet,M.J.
  TITLE     Macrophage activation and differentiation signals regulate
            schlafen-4 gene expression: evidence for Schlafen-4 as a modulator
            of myelopoiesis
  JOURNAL   PLoS One 6 (1), e15723 (2011)
   PUBMED   21249125
  REMARK    GeneRIF: Slfn4 mRNA levels were up-regulated during macrophage
            activation but down-regulated during differentiation. Constitutive
            Slfn4 expression in the myeloid lineage in vivo perturbs
            myelopoiesis
            Publication Status: Online-Only
REFERENCE   7  (bases 1 to 3958)
  AUTHORS   Bustos,O., Naik,S., Ayers,G., Casola,C., Perez-Lamigueiro,M.A.,
            Chippindale,P.T., Pritham,E.J. and de la Casa-Esperon,E.
  TITLE     Evolution of the Schlafen genes, a gene family associated with
            embryonic lethality, meiotic drive, immune processes and
            orthopoxvirus virulence
  JOURNAL   Gene 447 (1), 1-11 (2009)
   PUBMED   19619625
REFERENCE   8  (bases 1 to 3958)
  AUTHORS   Neumann,B., Zhao,L., Murphy,K. and Gonda,T.J.
  TITLE     Subcellular localization of the Schlafen protein family
  JOURNAL   Biochem Biophys Res Commun 370 (1), 62-66 (2008)
   PUBMED   18355440
REFERENCE   9  (bases 1 to 3958)
  AUTHORS   Piao,Y., Ko,N.T., Lim,M.K. and Ko,M.S.
  TITLE     Construction of long-transcript enriched cDNA libraries from
            submicrogram amounts of total RNAs by a universal PCR amplification
            method
  JOURNAL   Genome Res 11 (9), 1553-1558 (2001)
   PUBMED   11544199
REFERENCE   10 (bases 1 to 3958)
  AUTHORS   Schwarz,D.A., Katayama,C.D. and Hedrick,S.M.
  TITLE     Schlafen, a new family of growth regulatory genes that affect
            thymocyte development
  JOURNAL   Immunity 9 (5), 657-668 (1998)
   PUBMED   9846487
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AL669916.7, AK137559.1,
            AK137689.1 and BM230056.2.
            
            On Oct 30, 2014 this sequence version replaced NM_011410.2.
            
            Summary: The protein encoded by this gene belongs to the Schlafen
            family. All members of this family contain a Schlafen box domain
            that lies near an AAA domain. This protein belongs to the group 2
            subset of Schlafen proteins, which are defined by a molecular
            weight between 58 kDa and 68 kDa and by the presence of a SWADL
            domain that contains the sequence Ser-Trp-Ala-Asp-Leu. In malignant
            melanoma cells, gene expression is up-regulated in response to
            interferon alpha. In bone marrow-derived macrophages, expression of
            this gene is induced during activation by Toll-like receptor
            agonists and repressed during macrophage colony-stimulating
            factor-mediated differentiation. Myelopoiesis is disrupted by
            constitutive overexpression in myeloid-lineage cells. A pseudogene
            of this gene is found on chromosome 11. Alternative splicing
            results in multiple transcript variants. [provided by RefSeq, Oct
            2014].
            
            Transcript Variant: This variant (1) represents the longer
            transcript. Both 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 :: BC044865.1, AK137559.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849380, SAMN00849383
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on expression, longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-10                AL669916.7         94972-94981
            11-621              AK137559.1         2-612
            622-2676            AK137689.1         534-2588
            2677-2677           AL669916.7         108721-108721
            2678-3063           AK137689.1         2590-2975
            3064-3065           AL669916.7         109108-109109
            3066-3791           AK137689.1         2979-3704
            3792-3957           BM230056.2         1-166               c
            3958-3958           AL669916.7         110002-110002
FEATURES             Location/Qualifiers
     source          1..3958
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="11"
                     /map="11 50.3 cM"
     gene            1..3958
                     /gene="Slfn4"
                     /note="schlafen 4"
                     /db_xref="GeneID:20558"
                     /db_xref="MGI:MGI:1329010"
     exon            1..208
                     /gene="Slfn4"
                     /inference="alignment:Splign:2.1.0"
     exon            209..290
                     /gene="Slfn4"
                     /inference="alignment:Splign:2.1.0"
     exon            291..376
                     /gene="Slfn4"
                     /inference="alignment:Splign:2.1.0"
     exon            377..1099
                     /gene="Slfn4"
                     /inference="alignment:Splign:2.1.0"
     exon            1100..1185
                     /gene="Slfn4"
                     /inference="alignment:Splign:2.1.0"
     exon            1186..1364
                     /gene="Slfn4"
                     /inference="alignment:Splign:2.1.0"
     CDS             1228..3036
                     /gene="Slfn4"
                     /note="Schlafen family member 4"
                     /codon_start=1
                     /product="schlafen 4"
                     /protein_id="NP_035540.2"
                     /db_xref="CCDS:CCDS25158.1"
                     /db_xref="GeneID:20558"
                     /db_xref="MGI:MGI:1329010"
                     /translation="MAGNTPQLEKDVNPQTSIEPSVQVKCPGDILQGGRHAKRGRWMA
                     SWKGFHLGRRDSDCKMNITVDQDTDYAELVLSVGEITLGEKTRDSMKDSQLRRKEAKS
                     ILQAVCTLLNSGGGVVKAHIKNQNYSFTRDGMGLDLVNPLPGILHLPHDYLDFMQYND
                     YFFVFVKPWKPNQRGPGIATWKTNLYKRIFSFSVELKAADAVQFLKSRPSSHGKTVCN
                     ETLNECLSLFNRDWLAYEETFCFTKSTHAEVKLTPKEKISPKEKILELLPQTVSAFAN
                     TDGGYLFIGLDGKTQQIIGFEAEKSDLVLLESEIEKCIQQLPVTHFCEEKEKIKYTCK
                     FIEVHKSGAVCAYVCAIRVEKFCCAVFAAEPESWHVEGSCVKRFTTEEWVKRQMDATA
                     VMPGKVICSPEALCMKPFSQHEGYEQLVRTELGSLRKGTLVVSKSWALDLGLQEKQEV
                     IWDVLHISQGSLLTLHVFVQGDENLEGNSSLLGKLGAELKGYYKQIALTLKQTLVNHC
                     GYTAKIGIIVKITYLGHKTMCLYDSSAKICYPQIYYLTTKAVKDLEKALAEILGSYES
                     FYSLPRRNWDSFMSAFLNVGSYIVYFSRNVLTHIRI"
     exon            1365..2404
                     /gene="Slfn4"
                     /inference="alignment:Splign:2.1.0"
     exon            2405..3958
                     /gene="Slfn4"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3934..3939
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Slfn4"
                     /note="hexamer: AATAAA"
     polyA_site      3958
                     /gene="Slfn4"
                     /note="major polyA site"
ORIGIN      
        1 ggcgaggctt acgccatttt acctcagcga gcattcataa agctgcgagc attcatacag
       61 cggctgtatc ttgcttggtt ccgcagaatc agttgctctc cctccgcggt tgagctctga
      121 tcacctttcc tgcctctctg ggcaagggaa aggcctgcaa gcctactggt gctctgagct
      181 tcggggaaca cagcttccag gacacagaga atcttggctc cttggcatct tcgcagctat
      241 tctttcaaaa acaccggctg ctgaggactg gaagactctg aaggcttggg agacctgacc
      301 ctgttgaaca ctgagaaaat atggctccgg aaaggacaca gcctggtgta ctctagagcc
      361 agaaagatgc ttctgtatcc ttctacttgg ctccctctgt ctgcgctggc ttatccacct
      421 gcgttcgggg cagagtaagg acctctgaac atcatctcct tttctgcctg atacagctga
      481 caggcagcct gcatttcctt cagagagatt ttccccccag agtcaatgct acaatttgag
      541 aagaaggaac tacctagtta agtaaaaccc aaggaaccag gaggtctctg aacctcactt
      601 cagtcttgga atttgatgag ttttgctccc tcccttgcat ttaagtacca tgtccatact
      661 gagtgcctga aggtactggg tatgaacagt ttccatagtt gaggttttga actgagatgg
      721 ccagtgcccc aggctagccc acagctcctg taaaggggac tccaatgtag catcattgac
      781 tttaaagttt cccagaggcc tgagcattgt ccttttgcac tttggtgtga gatgtgattt
      841 ctgtcctctt tccatgtgct gtgtgaacct ggcatgctgg cttaggacat ggcctgattc
      901 agggggtgct gaatgggtgg ggctgaaagg gaaagaataa tagagaccac ataacagtgt
      961 atggaacagg gtggggctgc agcatctaac tctctctctc ttctttgcct gcttgccttg
     1021 tgggactgag caactgctag atccttagat ttccattcac agctgctgct gaccactgtt
     1081 gggagttgga ctacagattg gctcttactc ttgaggagga cacacaaccc gaagttccct
     1141 ctttgaaaca ccgtggactc caagcaactc agattccagg acaagaatct gaagtcagaa
     1201 agagttgaga agttatctga aggagagatg gctggaaaca ccccacagct ggagaaagat
     1261 gtgaatccac agacatccat agagccctct gttcaagtca agtgtccagg ggatattctt
     1321 cagggaggac ggcatgccaa gcgaggaaga tggatggcgt cgtggaaagg atttcatctg
     1381 ggaaggagag acagtgactg caaaatgaac atcactgtcg atcaggacac ggactacgct
     1441 gaactggttc tgtctgtagg agaaatcaca ctcggagaga agactaggga ttcaatgaaa
     1501 gatagccaac tgagaagaaa agaagccaaa agtatattac aggctgtgtg caccctgctg
     1561 aattctggag ggggtgtggt caaggctcac attaaaaatc aaaactacag cttcaccaga
     1621 gatggaatgg gactggattt ggtaaatccc ttgcctggta tcctgcacct tcctcatgac
     1681 tatctagact tcatgcagta caacgactac tttttcgttt ttgtgaaacc atggaagccg
     1741 aatcagagag gtccggggat cgccacctgg aaaaccaact tgtacaagag aatcttctca
     1801 ttctcagttg aactgaaagc agcggatgca gtgcagttcc tcaaatccag accaagttcc
     1861 catggaaaaa cagtctgtaa tgaaacacta aatgaatgtc tttccttatt taacagagac
     1921 tggcttgcct atgaggagac attctgtttc actaaatcca cacatgctga agtaaaattg
     1981 actcctaagg aaaagatttc tcctaaggaa aagattttag agctcctccc tcaaactgtt
     2041 tctgcatttg caaacactga tgggggatat ttgttcattg gcttggatgg caaaacgcag
     2101 caaattattg gttttgaagc agagaagagc gatctcgtgc ttctagagag tgaaatagaa
     2161 aagtgcatcc aacagctgcc tgtcactcac ttctgtgagg agaaggagaa gatcaagtac
     2221 acgtgcaaat tcatcgaagt gcacaaatcc ggagctgtgt gtgcatatgt gtgcgcgatc
     2281 agagtggaga agttctgctg tgcagtgttc gctgcagagc ctgagtcctg gcacgtggaa
     2341 ggcagctgtg tgaagaggtt taccacagag gaatgggtga agcgccagat ggatgccact
     2401 gcagtgatgc ctggaaaggt gatatgctct ccagaagccc tctgcatgaa accattctca
     2461 caacatgaag gctatgagca gttagtccgg acagaattgg gctccctgcg taaaggaaca
     2521 ctggttgtct ccaagagctg ggctttggat ctgggcttgc aagagaagca ggaagttatc
     2581 tgggatgtgc ttcatatttc ccagggcagt ctcctgaccc tgcatgtctt tgtccaggga
     2641 gatgagaacc tggaaggcaa cagcagtctt cttgggaaac taggcgccga gttaaagggc
     2701 tattataaac aaattgccct aacattaaag cagacgttgg taaaccattg tggttacact
     2761 gcgaaaatag gtattatagt aaagataaca tacttgggtc ataagacaat gtgtctttat
     2821 gactcaagcg cgaaaatatg ttacccccaa atatattatc tgactaccaa ggcagtaaag
     2881 gacttagaaa aagctctcgc tgaaatctta ggaagttatg agtctttcta cagtttaccc
     2941 aggagaaact gggattcttt tatgtctgcg tttttaaatg tgggcagtta tatagtttac
     3001 ttttcgagaa atgtcttaac tcatattcga atctgatgag taggatactt agaaaaagtt
     3061 cttgctgaaa tatttggaag taatgagtct ttctacagtt tacccaggta aaactgtagt
     3121 gatcgtttta tgtctgcatt tttaaaggca tgcaactata tagtttactt ttcgagaaat
     3181 atcttaactc ttattccagt ctgtcttgac acattctgtc ttaaaggaaa acattgtatc
     3241 tcttgtatgt aagacagtct acaggctggt cttaggccat gctggcagtt tctatggggc
     3301 tacaacatgg catctatttt tttctattta tatgatcatt tccgatgaag tattgataac
     3361 aggattttaa gatgttgata ttgttcgttt aggatttgac atgtattttt ttatgttcgt
     3421 atcatcatgt tgtttgtgct gtagataata cctttacagg tatttacagc attgagttta
     3481 catgcaagta ttacgcatta attgaaacgt tggtatttcc tttgtaaagg aagaaatgtc
     3541 tttattgtaa atctacgttt gtgaaggata aaatttctcg acatttagcc cttagcagct
     3601 attgtacata cagtggtaac ctgttgtgac atttgatgga gttcatcaaa agactggttg
     3661 cccatcacga cagttctgat aatgggggct atgagttggg tgttcacagg ccccattatc
     3721 cttagccatg ttctgctctg atctatttct ttatcaatac aattcatctt taaaatatac
     3781 ttcatttttt catgtgctct gtcctcagat ctgtgttttt atgaatacag ttcttctact
     3841 tgtatctttc ttcaacaaag cttcattatt aactgagaag ttatacataa aaaaatttgg
     3901 ataacaaagg ttctgccatt ttaatatttc taaaataaat gatcttaaca aaacgtca
//
