LOCUS       NM_001145805            1694 bp    mRNA    linear   PRI 10-JUN-2024
DEFINITION  Homo sapiens immunity related GTPase M (IRGM), transcript variant
            2, mRNA.
ACCESSION   NM_001145805 NR_026996 XR_040407 XR_040408 XR_040409
VERSION     NM_001145805.2
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 1694)
  AUTHORS   Cheng,H., Ouyang,Y. and Li,C.
  TITLE     Impact of IRGM gene promoter polymorphisms on susceptibility to
            chronic HBV infection
  JOURNAL   Int J Immunogenet 51 (3), 149-156 (2024)
   PUBMED   38514898
  REMARK    GeneRIF: Impact of IRGM gene promoter polymorphisms on
            susceptibility to chronic HBV infection.
REFERENCE   2  (bases 1 to 1694)
  AUTHORS   Ru,J., Lu,J., Ge,J., Ding,B., Su,R., Jiang,Y., Sun,Y., Ma,J.,
            Li,Y., Sun,J., Xu,G., Tong,R., Zheng,S., Yang,B. and Wu,J.
  TITLE     IRGM is a novel regulator of PD-L1 via promoting S6K1-mediated
            phosphorylation of YBX1 in hepatocellular carcinoma
  JOURNAL   Cancer Lett 581, 216495 (2024)
   PUBMED   37993085
  REMARK    GeneRIF: IRGM is a novel regulator of PD-L1 via promoting
            S6K1-mediated phosphorylation of YBX1 in hepatocellular carcinoma.
REFERENCE   3  (bases 1 to 1694)
  AUTHORS   Sun,M., Li,Z., Wang,X., Zhao,M., Chu,Y., Zhang,Z., Fang,K.,
            Zhao,Z., Feng,A., Leng,Z., Shi,J., Zhang,L., Chen,T. and Xu,M.
  TITLE     TAOK3 Facilitates Esophageal Squamous Cell Carcinoma Progression
            and Cisplatin Resistance Through Augmenting Autophagy Mediated by
            IRGM
  JOURNAL   Adv Sci (Weinh) 10 (29), e2300864 (2023)
   PUBMED   37705061
  REMARK    GeneRIF: TAOK3 Facilitates Esophageal Squamous Cell Carcinoma
            Progression and Cisplatin Resistance Through Augmenting Autophagy
            Mediated by IRGM.
REFERENCE   4  (bases 1 to 1694)
  AUTHORS   Ajayi,T., Rai,P., Shi,M., Gabor,K.A., Karmaus,P.W.F., Meacham,J.M.,
            Katen,K., Madenspacher,J.H., Schurman,S.H. and Fessler,M.B.
  TITLE     Race-specific association of an IRGM risk allele with cytokine
            expression in human subjects
  JOURNAL   Sci Rep 13 (1), 12911 (2023)
   PUBMED   37558924
  REMARK    GeneRIF: Race-specific association of an IRGM risk allele with
            cytokine expression in human subjects.
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 1694)
  AUTHORS   Bekpen,C., Xavier,R.J. and Eichler,E.E.
  TITLE     Human IRGM gene 'to be or not to be'
  JOURNAL   Semin Immunopathol 32 (4), 437-444 (2010)
   PUBMED   20737271
  REMARK    GeneRIF: the unusual evolutionary history of the IRGM locus and the
            important role of the IRGM gene in autophagy and Crohn's disease in
            response to pathogenesis.
            Review article
REFERENCE   6  (bases 1 to 1694)
  AUTHORS   Massey,D.C. and Parkes,M.
  TITLE     Genome-wide association scanning highlights two autophagy genes,
            ATG16L1 and IRGM, as being significantly associated with Crohn's
            disease
  JOURNAL   Autophagy 3 (6), 649-651 (2007)
   PUBMED   17921695
  REMARK    GeneRIF: IRGM is significantly associated with Crohn disease.
REFERENCE   7  (bases 1 to 1694)
  AUTHORS   Parkes,M., Barrett,J.C., Prescott,N.J., Tremelling,M.,
            Anderson,C.A., Fisher,S.A., Roberts,R.G., Nimmo,E.R.,
            Cummings,F.R., Soars,D., Drummond,H., Lees,C.W., Khawaja,S.A.,
            Bagnall,R., Burke,D.A., Todhunter,C.E., Ahmad,T., Onnie,C.M.,
            McArdle,W., Strachan,D., Bethel,G., Bryan,C., Lewis,C.M.,
            Deloukas,P., Forbes,A., Sanderson,J., Jewell,D.P., Satsangi,J.,
            Mansfield,J.C., Cardon,L. and Mathew,C.G.
  CONSRTM   Wellcome Trust Case Control Consortium
  TITLE     Sequence variants in the autophagy gene IRGM and multiple other
            replicating loci contribute to Crohn's disease susceptibility
  JOURNAL   Nat Genet 39 (7), 830-832 (2007)
   PUBMED   17554261
  REMARK    GeneRIF: Genetic evidence implicates IRGM defects in the early
            immune response in individuals with Crohn's disease.
REFERENCE   8  (bases 1 to 1694)
  AUTHORS   Singh,S.B., Davis,A.S., Taylor,G.A. and Deretic,V.
  TITLE     Human IRGM induces autophagy to eliminate intracellular
            mycobacteria
  JOURNAL   Science 313 (5792), 1438-1441 (2006)
   PUBMED   16888103
  REMARK    GeneRIF: identified a function for IRGM in the control of
            intracellular pathogens and report that IRGM plays a role in
            autophagy and in the reduction of intracellular Mycobacterium var.
            bovis BCG load
REFERENCE   9  (bases 1 to 1694)
  AUTHORS   Bekpen,C., Hunn,J.P., Rohde,C., Parvanova,I., Guethlein,L.,
            Dunn,D.M., Glowalla,E., Leptin,M. and Howard,J.C.
  TITLE     The interferon-inducible p47 (IRG) GTPases in vertebrates: loss of
            the cell autonomous resistance mechanism in the human lineage
  JOURNAL   Genome Biol 6 (11), R92 (2005)
   PUBMED   16277747
REFERENCE   10 (bases 1 to 1694)
  AUTHORS   MacMicking,J.D., Taylor,G.A. and McKinney,J.D.
  TITLE     Immune control of tuberculosis by IFN-gamma-inducible LRG-47
  JOURNAL   Science 302 (5645), 654-659 (2003)
   PUBMED   14576437
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AC010441.6.
            This sequence is a reference standard in the RefSeqGene project.
            
            On Sep 25, 2020 this sequence version replaced NM_001145805.1.
            
            Summary: This gene encodes a member of the p47 immunity-related
            GTPase family. The encoded protein may play a role in the innate
            immune response by regulating autophagy formation in response to
            intracellular pathogens. Polymorphisms that affect the normal
            expression of this gene are associated with a susceptibility to
            Crohn's disease and tuberculosis. Alternative splicing results in
            multiple transcript variants encoding different isoforms. [provided
            by RefSeq, Oct 2016].
            
            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.
            
            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 :: EU742619.1, SRR14038191.3899138.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA2149876, SAMEA2150385
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000522154.2/ ENSP00000428220.1
            RefSeq Select criteria :: based on computational evidence
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-700               AC010441.6         64247-64946         c
            701-1694            AC010441.6         62765-63758         c
FEATURES             Location/Qualifiers
     source          1..1694
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="5"
                     /map="5q33.1"
     gene            1..1694
                     /gene="IRGM"
                     /gene_synonym="IBD19; IFI1; IRGM1; LRG-47; LRG47"
                     /note="immunity related GTPase M"
                     /db_xref="GeneID:345611"
                     /db_xref="HGNC:HGNC:29597"
                     /db_xref="MIM:608212"
     exon            1..700
                     /gene="IRGM"
                     /gene_synonym="IBD19; IFI1; IRGM1; LRG-47; LRG47"
                     /inference="alignment:Splign:2.1.0"
     exon            701..1694
                     /gene="IRGM"
                     /gene_synonym="IBD19; IFI1; IRGM1; LRG-47; LRG47"
                     /inference="alignment:Splign:2.1.0"
     CDS             1116..1661
                     /gene="IRGM"
                     /gene_synonym="IBD19; IFI1; IRGM1; LRG-47; LRG47"
                     /note="isoform 2 is encoded by transcript variant 2;
                     immunity-related GTPase family, M1; LRG-47-like protein;
                     immunity-related GTPase family M protein;
                     interferon-inducible protein 1; LPS-stimulated RAW 264.7
                     macrophage protein 47 homolog"
                     /codon_start=1
                     /product="immunity-related GTPase family M protein isoform
                     2"
                     /protein_id="NP_001139277.1"
                     /db_xref="CCDS:CCDS47313.1"
                     /db_xref="GeneID:345611"
                     /db_xref="HGNC:HGNC:29597"
                     /db_xref="MIM:608212"
                     /translation="MEAMNVEKASADGNLPEVISNIKETLKIVSRTPVNITMAGDSGN
                     GMSTFISALRNTGHEGKASPPTELVKATQRCASYFSSHFSNVVLWDLPGTGSATTTLE
                     NYLMEMQFNRYDFIMVASAQFSMNHVMLAKTAEDMGKKFYIVWTKLDMDLSTGALPEV
                     QLLQIRENVLENLQKERVCEY"
     regulatory      1673..1678
                     /regulatory_class="polyA_signal_sequence"
                     /gene="IRGM"
                     /gene_synonym="IBD19; IFI1; IRGM1; LRG-47; LRG47"
                     /note="hexamer: ATTAAA"
     polyA_site      1694
                     /gene="IRGM"
                     /gene_synonym="IBD19; IFI1; IRGM1; LRG-47; LRG47"
                     /note="major polyA site"
ORIGIN      
        1 ggtaacctgc tcaggtcccc ttccatgctg tggaagcttt gtttttttgc actttgcagt
       61 aaatcttgct gctgctcatt ctttgggtcc acactgcctt tatgagctgt aacactcacc
      121 gtgaaggtct gcagcatcac tcctgaaacc tgtgaaacaa cgaacccccc ggggagaaac
      181 gaacaactcc agactcgccg cctgaagagc tgtaactctc acttcgaagg tctgcagctt
      241 cgctcctgag tcagtgaaac cacgaaccca ccggaaggaa gaaactctga acacatccaa
      301 acatcagaag gaacaaactc cggacacgca gcctttaaga attgtaacac tcaccgcgag
      361 ggtccgtggc ttcattcttg aagtcagtga gacgaagaac ccaccaattc cggtaggagt
      421 aggaaatcac atcaccttct tttaatcagt ctcaaatacc tggccccttg tggaacctgc
      481 aagagccagg tttggcgaat gcaatgataa gcaattgtct aatcactgcc ttgaaaaaga
      541 gcagagcatt tgagtatgct gtctcctcct ctccctcact tcagttgggc ccaacatgac
      601 agtcttaatg gaagctcggg ggtcaaaggc tggtggctta cttcacgtat attgcagcat
      661 ttcagtactg ctctgcacgt gtgctccccc gcctgatgag cttactccag tgcccacaga
      721 tacgacagag tgtcccaagt gcccctcaca ctctattagc tgcatcctta acctcttttt
      781 gccacaccat aagcattggg ttttgtttgt tttgagatgg agtcttgctc tgttgccagg
      841 ctggagtgca atggcgtgat ctcagctcac tgcaatatct gcgtccaggg ttcaagcgat
      901 tcccctgcct cagcctcctg tattagctgg gactacaggc gcacaccacc acgcgcagct
      961 aatttttttg tattttagta gagaaggttt cacgatgttg gccaggatgg tctcaatctc
     1021 ctgacctcgt gatctgctcg cctcggcctt ccaaagtgct gggattacag gcatgagcca
     1081 cggcgcctgg ccagcattgg ggtattttat tgaagatgga agccatgaat gttgagaaag
     1141 cctcagcaga tgggaacttg ccagaggtga tctctaacat caaggagact ctgaagatag
     1201 tgtccaggac accagttaac atcactatgg caggggactc tggcaatggg atgtccacct
     1261 tcatcagtgc ccttcgaaac acaggacatg agggtaaggc ctcacctcct actgagctgg
     1321 taaaagctac ccaaagatgt gcctcctatt tctcttccca cttttcaaat gtggtgttgt
     1381 gggacctgcc tggcacaggg tctgccacca caaccctgga gaactacctg atggaaatgc
     1441 agttcaaccg gtatgacttc atcatggttg catctgcaca attcagcatg aatcatgtga
     1501 tgcttgccaa aaccgctgag gacatgggaa agaagttcta cattgtctgg accaagctag
     1561 acatggacct cagcacaggt gccctcccag aagtgcagct actgcagatc agagaaaatg
     1621 tcctggaaaa tctccagaag gagcgggtat gtgaatacta attcctgtct tcattaaaca
     1681 ttttccatct cctc
//
